Query FD01849515_02436 type IV secretion protein Rhs
Match_columns 109
No_of_seqs 107 out of 117
Neff 4.09904
Searched_HMMs 86581
Date Tue Feb 27 21:17:14 2024
Command hhsearch -cpu 8 -i ../results/full.a3m -d /cluster/toolkit/production/databases/hh-suite/mmcif70/pdb70 -d /cluster/toolkit/production/databases/hh-suite/pfama/pfama -o ../results/5246740.hhr -oa3m ../results/5246740.a3m -p 20 -Z 250 -loc -z 1 -b 1 -B 250 -ssm 2 -sc 1 -seq 1 -dbstrlen 10000 -norealign -maxres 32000 -contxt /cluster/toolkit/production/bioprogs/tools/hh-suite-build-new/data/context_data.crf
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF14410.10 ; GH-E ; HNH/ENDO V 98.0 2.1E-05 2.5E-10 44.1 3.5 55 44-99 11-67 (69)
2 6TU5_FFF Polymerase basic prot 74.8 3 3.5E-05 32.4 1.2 16 52-67 83-103 (137)
3 PF20948.1 ; Flu_PB2_2nd ; Infl 60.2 5.3 6.1E-05 28.3 -0.1 24 45-68 42-68 (69)
4 1QA5_A PROTEIN (MYRISTOYLATED 37.3 42 0.00049 22.6 1.4 21 5-25 1-22 (58)
5 4R8H_B cAMP-activated global t 37.1 1.4E+02 0.0016 20.5 3.9 28 14-41 194-221 (222)
6 PF21214.1 ; bact_SelB_WH_2nd ; 36.9 80 0.00092 17.0 2.3 25 14-38 35-59 (59)
7 3IWZ_D Catabolite activation-l 36.6 1.4E+02 0.0016 20.4 3.9 28 14-41 202-229 (230)
8 1O5L_A transcriptional regulat 36.0 1.2E+02 0.0014 20.9 3.5 28 14-41 179-206 (213)
9 PF18834.5 ; LPD22 ; Large poly 35.7 26 0.0003 25.0 0.2 17 73-89 55-71 (96)
10 PF17783.5 ; CvfB_WH ; CvfB-lik 35.0 1.2E+02 0.0014 17.0 2.9 25 14-38 34-58 (58)
11 PF04432.17 ; FrhB_FdhB_C ; Coe 34.2 85 0.00098 22.9 2.7 18 13-30 123-140 (147)
12 7FEW_B cAMP-activated global t 34.1 1.7E+02 0.0019 19.8 3.9 28 14-41 185-212 (213)
13 4V6W_CU 60S ribosomal protein 31.2 1E+02 0.0012 27.5 3.1 77 17-99 213-293 (299)
14 3KCC_B Catabolite gene activat 27.4 2.2E+02 0.0026 20.7 3.9 28 14-41 232-259 (260)
15 PF11080.12 ; GhoS ; Endoribonu 27.1 2.4E+02 0.0028 19.0 3.8 29 17-51 18-46 (87)
16 PF01325.23 ; Fe_dep_repress ; 26.9 1.7E+02 0.0019 15.7 2.5 22 14-35 36-57 (59)
17 PF20547.2 ; DUF6761 ; Family o 26.3 68 0.00079 23.7 1.1 15 75-89 58-72 (82)
18 PF20513.2 ; UBact ; Prokaryoti 25.5 1.2E+02 0.0014 20.0 2.0 19 7-25 10-28 (43)
19 7BZH_A Sul7s; Archaea, Crenarc 25.5 2.4E+02 0.0027 17.9 3.3 28 12-39 30-57 (59)
20 2RA5_A Putative transcriptiona 24.3 2.6E+02 0.003 20.3 3.7 28 14-41 55-82 (247)
21 4RFA_A Lmo0740 protein; Struct 22.8 3.5E+02 0.004 19.1 4.0 33 10-42 191-223 (226)
22 PF14044.10 ; NETI ; NETI prote 22.8 1.3E+02 0.0015 20.7 1.8 14 15-28 9-22 (56)
23 5M3H_C Polymerase basic protei 22.5 75 0.00087 30.7 0.9 19 49-67 89-112 (797)
24 6QNW_I Polymerase basic protei 22.5 74 0.00085 30.5 0.8 19 49-67 80-103 (765)
25 3E97_A Transcriptional regulat 22.3 3.3E+02 0.0038 18.7 3.7 27 14-40 190-216 (231)
26 8I9J_B RNA-binding protein E3; 22.3 2.6E+02 0.0031 16.1 2.9 26 10-35 29-54 (62)
27 3LA7_B Global nitrogen regulat 22.2 3E+02 0.0035 19.6 3.7 28 14-41 208-235 (243)
28 6EXM_B Listeriolysin positive 21.9 2.8E+02 0.0032 19.7 3.4 28 13-40 183-212 (239)
29 1ZYB_A transcription regulator 21.8 2.7E+02 0.0031 19.6 3.3 32 10-41 197-228 (232)
30 3I71_A Ethanolamine utilizatio 21.8 3.2E+02 0.0036 17.0 3.3 26 14-39 33-58 (68)
31 4CYD_A PROBABLE TRANSCRIPTION 21.8 3.5E+02 0.004 18.6 3.8 27 14-40 190-216 (225)
32 2GAU_A transcriptional regulat 21.5 3E+02 0.0035 19.1 3.5 27 14-40 195-221 (232)
33 PF20612.2 ; SHOCT_2 ; SHOCT do 21.1 1.7E+02 0.0019 18.5 2.0 15 15-29 14-28 (53)
34 7Z42_F Polymerase basic protei 21.0 88 0.001 30.3 1.0 19 49-67 91-114 (798)
35 7ETS_A Crp/Fnr family transcri 20.8 3.3E+02 0.0038 18.6 3.5 28 14-41 191-218 (226)
36 7XP1_A Probable transcriptiona 20.4 3.7E+02 0.0043 18.9 3.8 32 10-41 37-68 (218)
No 1
>PF14410.10 ; GH-E ; HNH/ENDO VII superfamily nuclease with conserved GHE residues
Probab=97.96 E-value=2.1e-05 Score=44.06 Aligned_cols=55 Identities=13% Similarity=0.043 Sum_probs=42.4 Template_Neff=12.500
Q ss_pred CEEEchHhccCCCccHHHHHHhhccc--cCCCCHHHHHHhhCCCceeecCcccchhcC
Q FD01849515_024 44 NWYPLREADMSHTTDAVTWWNNTGRY--LGPKSKPVRNWMLDSNNYYLDHYSLNRSAG 99 (109)
Q Consensus 44 ~W~pl~~aDMgH~~DAV~~WN~~Gr~--~G~kS~eVR~wMlDp~NY~Le~~~~NrS~G 99 (109)
..++....|+||...+ .+|+..+.. .+....++++|+++|.||.++..+.|++..
T Consensus 11 ~~~~~~~~~~gh~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 67 (69)
T E4NLC7_HALBP/3 11 VPLDRDEWCMGHKPRR-EYWYLVEYYLRGIITREEFLAEYRNPDHYQPESHRASSSGE 67 (69)
T ss_pred CccCcccCCCCCCChH-HHHHHHHHHHcCCCCHHHHHHHhcChhhcCCCCccccccCC
Confidence 3333445789999776 566665554 567888999999999999999999988765
No 2
>6TU5_FFF Polymerase basic protein 2; RNA-dependent RNA polymerase, VIRAL PROTEIN; 3.325A {Influenza A virus (A/Zhejiang/DTID-ZJU01/2013(H7N9))}
Probab=74.81 E-value=3 Score=32.45 Aligned_cols=16 Identities=50% Similarity=1.003 Sum_probs=0.0 Template_Neff=5.000
Q ss_pred ccCCC-----ccHHHHHHhhc
Q FD01849515_024 52 DMSHT-----TDAVTWWNNTG 67 (109)
Q Consensus 52 DMgH~-----~DAV~~WN~~G 67 (109)
|+||. ..||+|||..|
T Consensus 83 D~~~~rvlcs~~avdwW~~~g 103 (137)
T 6TU5_FFF 83 DAGSDRVMVSPLAVTWWNRNG 103 (137)
T ss_pred ecCCCceeechhHhhHHHHhC
No 3
>PF20948.1 ; Flu_PB2_2nd ; Influenza RNA polymerase PB2 second domain
Probab=60.20 E-value=5.3 Score=28.33 Aligned_cols=24 Identities=38% Similarity=0.872 Sum_probs=0.0 Template_Neff=2.600
Q ss_pred EEEchHhccCCC---ccHHHHHHhhcc
Q FD01849515_024 45 WYPLREADMSHT---TDAVTWWNNTGR 68 (109)
Q Consensus 45 W~pl~~aDMgH~---~DAV~~WN~~Gr 68 (109)
|-...++--++. ..||+|||..|.
T Consensus 42 ws~~~D~~~~~~l~s~~avtwWn~~Gp 68 (69)
T PB2_I34A1/37-1 42 WSKMNDAGSDRVMVSPLAVTWWNRNGP 68 (69)
T ss_pred hhcccccCCCCeeecccccchhhhcCC
No 4
>1QA5_A PROTEIN (MYRISTOYLATED HIV-1 NEF ANCHOR DOMAIN (MYRISTATE-GLY2 TO TRP57)); HIV, AIDS, REGULATORY FACTOR, NEGATIVE FACTOR, NEF, MYRISTOYLATION, Viral protein; HET: MYR; NMR {N/A} SCOP: j.52.1.1
Probab=37.32 E-value=42 Score=22.61 Aligned_cols=21 Identities=38% Similarity=0.434 Sum_probs=0.0 Template_Neff=5.200
Q ss_pred cCCCCCCCChhH-HHHHHHHHH
Q FD01849515_024 5 LGRTPGKNSRTG-REVIARMRQ 25 (109)
Q Consensus 5 mG~TPgK~S~tG-r~V~~RM~~ 25 (109)
||.--+|.|-+| .+|.|||+.
T Consensus 1 MGgkwskss~~gw~~vrer~rr 22 (58)
T 1QA5_A 1 XGGKWSKSSVVGWPAVRERMRR 22 (58)
T ss_dssp -CCCCSCCCCCCCTTHHHHHSS
T ss_pred CCCCCCccccCChHHHHHHHhc
No 5
>4R8H_B cAMP-activated global transcriptional regulator CRP; Transcription factor, Transcription; HET: SP1, GOL; 1.46A {Escherichia coli} SCOP: a.4.5.0, b.82.3.2
Probab=37.08 E-value=1.4e+02 Score=20.52 Aligned_cols=28 Identities=4% Similarity=0.056 Sum_probs=0.0 Template_Neff=12.700
Q ss_pred hhHHHHHHHHHHcCCeeccCCceEEECC
Q FD01849515_024 14 RTGREVIARMRQNGDVLDVNGQTIFKAS 41 (109)
Q Consensus 14 ~tGr~V~~RM~~eg~ir~~~~~~~~~~~ 41 (109)
.+-..++.+++++|.|+...+.+.+.++
T Consensus 194 ~~~~r~l~~l~~~g~i~~~~~~i~i~~~ 221 (222)
T 4R8H_B 194 ETVGRILKMLEDQNLISAHGKTIVVYGT 221 (222)
T ss_dssp HHHHHHHHHHHHTTSEECCSSEEEEETC
T ss_pred HHHHHHHHHHHHCCCEEEeCCEEEEeCC
No 6
>PF21214.1 ; bact_SelB_WH_2nd ; Selenocysteine-specific elongation factor, bacteria, winged helix
Probab=36.90 E-value=80 Score=17.02 Aligned_cols=25 Identities=20% Similarity=0.286 Sum_probs=0.0 Template_Neff=11.900
Q ss_pred hhHHHHHHHHHHcCCeeccCCceEE
Q FD01849515_024 14 RTGREVIARMRQNGDVLDVNGQTIF 38 (109)
Q Consensus 14 ~tGr~V~~RM~~eg~ir~~~~~~~~ 38 (109)
.+...++..|..+|.|...++...+
T Consensus 35 ~~~~~~l~~l~~~g~~~~~~~~~~~ 59 (59)
T A0A071LXJ0_9EN 35 QTMRQVLRQAAQFGLITAIVKDRYY 59 (59)
T ss_pred HHHHHHHHHHHHcCCeEeccCCCCC
No 7
>3IWZ_D Catabolite activation-like protein; Xcc, pathogenicity, CRP, CLP, c-di-GMP receptor, Quorum Sensing, DNA-binding, Transcription, Transcription regulation; 2.3A {Xanthomonas campestris pv. campestris} SCOP: a.4.5.0, b.82.3.0
Probab=36.63 E-value=1.4e+02 Score=20.44 Aligned_cols=28 Identities=7% Similarity=0.228 Sum_probs=0.0 Template_Neff=12.900
Q ss_pred hhHHHHHHHHHHcCCeeccCCceEEECC
Q FD01849515_024 14 RTGREVIARMRQNGDVLDVNGQTIFKAS 41 (109)
Q Consensus 14 ~tGr~V~~RM~~eg~ir~~~~~~~~~~~ 41 (109)
.+-..++.+++++|.|....+.+.+.++
T Consensus 202 ~~~~r~l~~l~~~g~i~~~~~~i~i~~~ 229 (230)
T 3IWZ_D 202 EMAGRVLKKLQADGLLHARGKTVVLYGT 229 (230)
T ss_dssp HHHHHHHHHHHHTTSEEEETTEEEEECC
T ss_pred HHHHHHHHHHHHCCCEEEcCCEEEEEcC
No 8
>1O5L_A transcriptional regulator, crp family; TM1171, TRANSCRIPTIONAL REGULATOR, CRP FAMILY, STRUCTURAL GENOMICS, JCSG, PSI, Protein Structure Initiative, Joint Center for Structural; 2.3A {Thermotoga maritima} SCOP: b.82.3.2
Probab=36.01 E-value=1.2e+02 Score=20.89 Aligned_cols=28 Identities=7% Similarity=0.062 Sum_probs=0.0 Template_Neff=12.400
Q ss_pred hhHHHHHHHHHHcCCeeccCCceEEECC
Q FD01849515_024 14 RTGREVIARMRQNGDVLDVNGQTIFKAS 41 (109)
Q Consensus 14 ~tGr~V~~RM~~eg~ir~~~~~~~~~~~ 41 (109)
.+-..++.+|.++|.|....+.+.+.+.
T Consensus 179 ~~~~~~l~~l~~~g~i~~~~~~i~i~~~ 206 (213)
T 1O5L_A 179 PALSRVFQELEREGYIEKHGRRIKVLKN 206 (213)
T ss_dssp ----------------------------
T ss_pred HHHHHHHHHHHHCCCEEEcCCEEEEcCh
No 9
>PF18834.5 ; LPD22 ; Large polyvalent protein associated domain 22
Probab=35.75 E-value=26 Score=24.97 Aligned_cols=17 Identities=24% Similarity=0.208 Sum_probs=0.0 Template_Neff=7.000
Q ss_pred CCHHHHHHhhCCCceee
Q FD01849515_024 73 KSKPVRNWMLDSNNYYL 89 (109)
Q Consensus 73 kS~eVR~wMlDp~NY~L 89 (109)
.||-+.+|+.||+|+-|
T Consensus 55 ~sP~~a~~l~dp~~Aa~ 71 (96)
T A0A106BIY4_THI 55 NSPALRQKFSDADFAKL 71 (96)
T ss_pred hCHHHHHHhhChhHHHH
No 10
>PF17783.5 ; CvfB_WH ; CvfB-like winged helix domain
Probab=35.01 E-value=1.2e+02 Score=16.97 Aligned_cols=25 Identities=8% Similarity=0.161 Sum_probs=0.0 Template_Neff=11.000
Q ss_pred hhHHHHHHHHHHcCCeeccCCceEE
Q FD01849515_024 14 RTGREVIARMRQNGDVLDVNGQTIF 38 (109)
Q Consensus 14 ~tGr~V~~RM~~eg~ir~~~~~~~~ 38 (109)
.+.+.++.++..+|.|....+...+
T Consensus 34 ~~~~~~l~~L~~~g~i~~~~~~~~~ 58 (58)
T S6GJI0_9GAMM/2 34 KSYKMALGTLKKLGHIDISNTSISL 58 (58)
T ss_pred HHHHHHHHHHHHcCCeEEeCCeEeC
No 11
>PF04432.17 ; FrhB_FdhB_C ; Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus
Probab=34.21 E-value=85 Score=22.86 Aligned_cols=18 Identities=17% Similarity=0.228 Sum_probs=0.0 Template_Neff=9.000
Q ss_pred ChhHHHHHHHHHHcCCee
Q FD01849515_024 13 SRTGREVIARMRQNGDVL 30 (109)
Q Consensus 13 S~tGr~V~~RM~~eg~ir 30 (109)
|..|+++|++|.++|.|.
T Consensus 123 t~~G~~~l~~~~~~g~i~ 140 (147)
T D3E0V7_METRM/4 123 SEKGEEIVKGAIEQRFIE 140 (147)
T ss_pred CHHHHHHHHHHHHcCCEE
No 12
>7FEW_B cAMP-activated global transcriptional regulator Vfr; cyclic AMP receptor protein, DNA BINDING PROTEIN; HET: SO4, CMP; 1.75A {Pseudomonas aeruginosa PAO1}
Probab=34.06 E-value=1.7e+02 Score=19.82 Aligned_cols=28 Identities=11% Similarity=0.088 Sum_probs=0.0 Template_Neff=12.900
Q ss_pred hhHHHHHHHHHHcCCeeccCCceEEECC
Q FD01849515_024 14 RTGREVIARMRQNGDVLDVNGQTIFKAS 41 (109)
Q Consensus 14 ~tGr~V~~RM~~eg~ir~~~~~~~~~~~ 41 (109)
.+--.++.++.++|.|....+.+.+.++
T Consensus 185 ~~~~~~l~~l~~~g~i~~~~~~~~i~~~ 212 (213)
T 7FEW_B 185 EMVGRVLKSLEEQGLVHVKGKTMVVFGT 212 (213)
T ss_dssp HHHHHHHHHHHHHTSEEEETTEEEEECC
T ss_pred HHHHHHHHHHHHCCCEEEeCCEEEEecC
No 13
>4V6W_CU 60S ribosomal protein L22; eukarya, eukaryotic, ribosomal, 80S, RNA, protein synthesis, mass spectrometry, RIBOSOME; 6.0A {Drosophila melanogaster}
Probab=31.22 E-value=1e+02 Score=27.48 Aligned_cols=77 Identities=14% Similarity=0.310 Sum_probs=0.0 Template_Neff=4.300
Q ss_pred HHHHHHHHHcCCeeccCCceEEECCCCCEEEchHhccCCCccHHHHHHhhccccCCCCHHHHHH----hhCCCceeecCc
Q FD01849515_024 17 REVIARMRQNGDVLDVNGQTIFKASDGNWYPLREADMSHTTDAVTWWNNTGRYLGPKSKPVRNW----MLDSNNYYLDHY 92 (109)
Q Consensus 17 r~V~~RM~~eg~ir~~~~~~~~~~~dg~W~pl~~aDMgH~~DAV~~WN~~Gr~~G~kS~eVR~w----MlDp~NY~Le~~ 92 (109)
+-+.+||.-+|++-..++.+.|.....+..-.+++.+ ....+.|+...--+.- .+|+| ..+.+.|+|.|+
T Consensus 213 kFLqerIKVnGKtgNLg~~V~Ier~ktKItVtS~v~F--SKRYLKYLTKKyLKK~----~LRDWlRVVAs~KdtYeLrYf 286 (299)
T 4V6W_CU 213 KYIKARLKVNGKVNNLGNNVTFERSKLKLIVSSDVHF--SKAYLKYLTKKYLKKN----SLRDWIRVVANEKDSYELRYF 286 (299)
T ss_pred HHHHHheeeCCeecccCCceEeeecCCceEEecCChh--hHHHHHHHHHHHHHHc----ChhHheEEEecCCCeeEEEEE
Q ss_pred ccchhcC
Q FD01849515_024 93 SLNRSAG 99 (109)
Q Consensus 93 ~~NrS~G 99 (109)
.+|..+.
T Consensus 287 ni~~~e~ 293 (299)
T 4V6W_CU 287 RISSNDD 293 (299)
T ss_pred ecCCCcc
No 14
>3KCC_B Catabolite gene activator; helix-turn-helix, Activator, cAMP, cAMP-binding, DNA-binding, Nucleotide-binding, Transcription, Transcription regulation; HET: CMP; 1.66A {Escherichia coli} SCOP: a.4.5.0, b.82.3.2
Probab=27.36 E-value=2.2e+02 Score=20.67 Aligned_cols=28 Identities=4% Similarity=0.056 Sum_probs=0.0 Template_Neff=12.000
Q ss_pred hhHHHHHHHHHHcCCeeccCCceEEECC
Q FD01849515_024 14 RTGREVIARMRQNGDVLDVNGQTIFKAS 41 (109)
Q Consensus 14 ~tGr~V~~RM~~eg~ir~~~~~~~~~~~ 41 (109)
.+--.++..|.++|.|+...+.+.|.++
T Consensus 232 ~~~~r~l~~l~~~g~i~~~~~~i~i~~~ 259 (260)
T 3KCC_B 232 ETVGRILKMLEDQNLISAHGKTIVVYGT 259 (260)
T ss_dssp HHHHHHHHHHHHTTSEEEETTEEEEC--
T ss_pred HHHHHHHHHHHHCCCEEEcCCEEEEecC
No 15
>PF11080.12 ; GhoS ; Endoribonuclease GhoS
Probab=27.11 E-value=2.4e+02 Score=18.99 Aligned_cols=29 Identities=17% Similarity=-0.047 Sum_probs=0.0 Template_Neff=8.400
Q ss_pred HHHHHHHHHcCCeeccCCceEEECCCCCEEEchHh
Q FD01849515_024 17 REVIARMRQNGDVLDVNGQTIFKASDGNWYPLREA 51 (109)
Q Consensus 17 r~V~~RM~~eg~ir~~~~~~~~~~~dg~W~pl~~a 51 (109)
.++-+.|.+.|..+ .+...+|+|+.|+.+
T Consensus 18 ~~L~~~M~~~Gf~~------~i~~~~g~~~~LP~~ 46 (87)
T GHOS_ECOLI/8-9 18 LRLRSLMYDMNFSS------IVADEYGIPRQLNEN 46 (87)
T ss_pred HHHHHHHHhCCCee------EEECCCCCEeeCCCC
No 16
>PF01325.23 ; Fe_dep_repress ; Iron dependent repressor, N-terminal DNA binding domain
Probab=26.86 E-value=1.7e+02 Score=15.72 Aligned_cols=22 Identities=18% Similarity=0.145 Sum_probs=0.0 Template_Neff=11.900
Q ss_pred hhHHHHHHHHHHcCCeeccCCc
Q FD01849515_024 14 RTGREVIARMRQNGDVLDVNGQ 35 (109)
Q Consensus 14 ~tGr~V~~RM~~eg~ir~~~~~ 35 (109)
.+...++++|.+.|.|....+.
T Consensus 36 ~~~~~~l~~l~~~g~~~~~~~~ 57 (59)
T O28489_ARCFU/1 36 SSVTEMLIKLRDMGYVDYQPYK 57 (59)
T ss_pred HHHHHHHHHHHHCCCcccccCC
No 17
>PF20547.2 ; DUF6761 ; Family of unknown function (DUF6761)
Probab=26.26 E-value=68 Score=23.66 Aligned_cols=15 Identities=13% Similarity=0.561 Sum_probs=0.0 Template_Neff=3.100
Q ss_pred HHHHHHhhCCCceee
Q FD01849515_024 75 KPVRNWMLDSNNYYL 89 (109)
Q Consensus 75 ~eVR~wMlDp~NY~L 89 (109)
.||-.|+.||.|+++
T Consensus 58 ee~~Rfl~DpSnF~~ 72 (82)
T K9W329_9CYAN/1 58 EEATRYLYDTSNFNM 72 (82)
T ss_pred HHHHHHHhChhhccc
No 18
>PF20513.2 ; UBact ; Prokaryotic ubiquitin-like protein UBact
Probab=25.54 E-value=1.2e+02 Score=19.95 Aligned_cols=19 Identities=16% Similarity=0.455 Sum_probs=0.0 Template_Neff=2.700
Q ss_pred CCCCCCChhHHHHHHHHHH
Q FD01849515_024 7 RTPGKNSRTGREVIARMRQ 25 (109)
Q Consensus 7 ~TPgK~S~tGr~V~~RM~~ 25 (109)
+.|.-..+-..++++||++
T Consensus 10 ~~Pdv~rP~~~~LLkRMrk 28 (43)
T UBACT_CHTCT/22 10 QKPDVKRPDTSDLLRRMKR 28 (43)
T ss_pred CCCCCCCCChHHHHHHHHh
No 19
>7BZH_A Sul7s; Archaea, Crenarchaea, Sulfolobus, DNA binding protein; NMR {Sulfolobus islandicus}
Probab=25.51 E-value=2.4e+02 Score=17.91 Aligned_cols=28 Identities=4% Similarity=0.008 Sum_probs=0.0 Template_Neff=7.800
Q ss_pred CChhHHHHHHHHHHcCCeeccCCceEEE
Q FD01849515_024 12 NSRTGREVIARMRQNGDVLDVNGQTIFK 39 (109)
Q Consensus 12 ~S~tGr~V~~RM~~eg~ir~~~~~~~~~ 39 (109)
..++-...+.+|.++|+|....+.....
T Consensus 30 ~~~~v~~~L~~L~~~G~I~~~~~~~y~~ 57 (59)
T 7BZH_A 30 PAPEVYDALSQLIKENKVGRRGRYFYYI 57 (59)
T ss_dssp CHHHHHHHHHHHHHTTSEEEETTEEEEC
T ss_pred CHHHHHHHHHHHHHcCCeeeecCceeee
No 20
>2RA5_A Putative transcriptional regulator; beta structure, UTRA domain, Structural Genomics, PSI-2, Protein Structure Initiative, Midwest Center for Structural Genomics, MCSG; HET: SRT, MSE; 2.4A {Streptomyces coelicolor A3(2)} SCOP: d.190.1.2
Probab=24.34 E-value=2.6e+02 Score=20.25 Aligned_cols=28 Identities=18% Similarity=0.170 Sum_probs=0.0 Template_Neff=11.900
Q ss_pred hhHHHHHHHHHHcCCeeccCCceEEECC
Q FD01849515_024 14 RTGREVIARMRQNGDVLDVNGQTIFKAS 41 (109)
Q Consensus 14 ~tGr~V~~RM~~eg~ir~~~~~~~~~~~ 41 (109)
.|.++++.+|.++|+|....++-.|..+
T Consensus 55 ~~vr~al~~L~~~g~i~~~~~~G~~V~~ 82 (247)
T 2RA5_A 55 PTVRQAIQSLVDKGLLVRRRGVGTQVVH 82 (247)
T ss_dssp -------------CEEEEEC--------
T ss_pred HHHHHHHHHHHHCCCEEEECCCceEecC
No 21
>4RFA_A Lmo0740 protein; Structural Genomics, PSI-Biology, Midwest Center for Structural Genomics, MCSG, Crp, TRANSCRIPTION REGULATOR; HET: MSE; 2.21A {Listeria monocytogenes}
Probab=22.81 E-value=3.5e+02 Score=19.14 Aligned_cols=33 Identities=0% Similarity=0.035 Sum_probs=0.0 Template_Neff=12.100
Q ss_pred CCCChhHHHHHHHHHHcCCeeccCCceEEECCC
Q FD01849515_024 10 GKNSRTGREVIARMRQNGDVLDVNGQTIFKASD 42 (109)
Q Consensus 10 gK~S~tGr~V~~RM~~eg~ir~~~~~~~~~~~d 42 (109)
+-.-.+--.++.+++++|.|....+.+.+.+.+
T Consensus 191 g~s~~~~~~~l~~l~~~g~i~~~~~~i~i~~~~ 223 (226)
T 4RFA_A 191 RTTQPNISNLLTELVEEEFLINKKSPYRIDKDS 223 (226)
T ss_dssp TSCHHHHHHHHHHHHHTTSBSCSSSSCEEETTT
T ss_pred CCCHHHHHHHHHHHHHCCceecCCCCeEEeccc
No 22
>PF14044.10 ; NETI ; NETI protein
Probab=22.81 E-value=1.3e+02 Score=20.66 Aligned_cols=14 Identities=21% Similarity=0.335 Sum_probs=0.0 Template_Neff=3.800
Q ss_pred hHHHHHHHHHHcCC
Q FD01849515_024 15 TGREVIARMRQNGD 28 (109)
Q Consensus 15 tGr~V~~RM~~eg~ 28 (109)
|--++++||.++|+
T Consensus 9 TI~~CL~Rm~~eGY 22 (56)
T U5L4Y3_9BACI/9 9 TIGQCLDRIAKEGY 22 (56)
T ss_pred cHHHHHHHHHHcCC
No 23
>5M3H_C Polymerase basic protein 2; influenza RNA-dependent RNA polymerase, vRNA promoter, Pol II serine 5 phosphorylated CTD peptide, transferase; HET: SEP, PO4; 2.5A {Influenza A virus}
Probab=22.50 E-value=75 Score=30.72 Aligned_cols=19 Identities=42% Similarity=0.961 Sum_probs=0.0 Template_Neff=7.400
Q ss_pred hHhccCCC-----ccHHHHHHhhc
Q FD01849515_024 49 READMSHT-----TDAVTWWNNTG 67 (109)
Q Consensus 49 ~~aDMgH~-----~DAV~~WN~~G 67 (109)
...|++|. ..||+||+..|
T Consensus 89 ~~~D~~~grvlck~eavdww~~~~ 112 (797)
T 5M3H_C 89 NTKDAGSNRVLVSPNAVTWWNRAG 112 (797)
T ss_dssp EEECTTSSCEEECHHHHHHHHHHS
T ss_pred ccccCCCCceeechhHHcHHHHhC
No 24
>6QNW_I Polymerase basic protein 2; Influenza A, RNA polymerase, Influenza polymerase, Influenza dimer, RDRP, RNA BINDING PROTEIN; 3.31A {Influenza A virus (A/Northern Territory/60/1968(H3N2))}
Probab=22.49 E-value=74 Score=30.52 Aligned_cols=19 Identities=42% Similarity=0.877 Sum_probs=0.0 Template_Neff=7.600
Q ss_pred hHhccCCC-----ccHHHHHHhhc
Q FD01849515_024 49 READMSHT-----TDAVTWWNNTG 67 (109)
Q Consensus 49 ~~aDMgH~-----~DAV~~WN~~G 67 (109)
...|++|. ..||+||+..|
T Consensus 80 ~~~D~~~grvlck~eavdww~~~~ 103 (765)
T 6QNW_I 80 KMSDAGSDRVMVSPLAVTWWNRNG 103 (765)
T ss_dssp C--------CEECHHHHHHHHHSS
T ss_pred hccccCCCceeechhHhchhHHhC
No 25
>3E97_A Transcriptional regulator, Crp/Fnr family; YP_604437.1, transcriptional regulator, Crp/Fnr family, Structural Genomics, Joint Center for Structural Genomics, JCSG, Protein Structure Initiative; HET: MSE; 1.86A {Deinococcus geothermalis DSM 11300}
Probab=22.26 E-value=3.3e+02 Score=18.70 Aligned_cols=27 Identities=11% Similarity=0.046 Sum_probs=0.0 Template_Neff=12.900
Q ss_pred hhHHHHHHHHHHcCCeeccCCceEEEC
Q FD01849515_024 14 RTGREVIARMRQNGDVLDVNGQTIFKA 40 (109)
Q Consensus 14 ~tGr~V~~RM~~eg~ir~~~~~~~~~~ 40 (109)
.+--.++.+++++|.|....+.+.+.+
T Consensus 190 ~~~~r~l~~l~~~g~i~~~~~~~~i~~ 216 (231)
T 3E97_A 190 ETVSRVLKRLEAHNILEVSPRSVTLLD 216 (231)
T ss_dssp HHHHHHHHHHHHTTSEEECSSCEEESC
T ss_pred HHHHHHHHHHHHCCceEEcCCeEEEec
No 26
>8I9J_B RNA-binding protein E3; E3L, PKR, Vaccinia Virus, VIRAL PROTEIN-TRANSFERASE complex;{Vaccinia virus WR}
Probab=22.25 E-value=2.6e+02 Score=16.06 Aligned_cols=26 Identities=8% Similarity=0.139 Sum_probs=0.0 Template_Neff=10.600
Q ss_pred CCCChhHHHHHHHHHHcCCeeccCCc
Q FD01849515_024 10 GKNSRTGREVIARMRQNGDVLDVNGQ 35 (109)
Q Consensus 10 gK~S~tGr~V~~RM~~eg~ir~~~~~ 35 (109)
+....+....+.+|.+.|+|......
T Consensus 29 ~~~~~~v~~~l~~l~~~g~v~~~~~~ 54 (62)
T 8I9J_B 29 NMEKREVNKALYDLQRSAMVYSSDDI 54 (62)
T ss_dssp SSCCTTTTTTSSCTTTSCCCCCCSSS
T ss_pred CCCHHHHHHHHHHHHHcCCeeecCCC
No 27
>3LA7_B Global nitrogen regulator; nitrogen regulator, Activator, DNA-binding, Transcription, Transcription regulation; HET: BOG; 1.9A {Anabaena}
Probab=22.15 E-value=3e+02 Score=19.60 Aligned_cols=28 Identities=7% Similarity=0.050 Sum_probs=0.0 Template_Neff=12.200
Q ss_pred hhHHHHHHHHHHcCCeeccCCceEEECC
Q FD01849515_024 14 RTGREVIARMRQNGDVLDVNGQTIFKAS 41 (109)
Q Consensus 14 ~tGr~V~~RM~~eg~ir~~~~~~~~~~~ 41 (109)
.+-..++.+|+++|.|....+.+.+.+.
T Consensus 208 ~~~~r~l~~l~~~g~i~~~~~~~~i~~~ 235 (243)
T 3LA7_B 208 VTVTRLLGDLREKKMISIHKKKITVHKP 235 (243)
T ss_dssp HHHHHHHHHHHHTTSEEEETTEEEESCC
T ss_pred HHHHHHHHHHHHCCCEEEeCCEEEEeCh
No 28
>6EXM_B Listeriolysin positive regulatory factor A; Transcription regulator, DNA binding, 2-pyridone, drug design, Listeria monocytogenes, DNA BINDING PROTEIN; HET: QQH, IPA; 1.6A {Listeria monocytogenes}
Probab=21.91 E-value=2.8e+02 Score=19.68 Aligned_cols=28 Identities=11% Similarity=0.190 Sum_probs=0.0 Template_Neff=12.300
Q ss_pred Ch--hHHHHHHHHHHcCCeeccCCceEEEC
Q FD01849515_024 13 SR--TGREVIARMRQNGDVLDVNGQTIFKA 40 (109)
Q Consensus 13 S~--tGr~V~~RM~~eg~ir~~~~~~~~~~ 40 (109)
|+ +-..++.+++++|+|....+.+.+.+
T Consensus 183 s~~~~~~r~l~~l~~~g~i~~~~~~~~i~~ 212 (239)
T 6EXM_B 183 AHSSAVSRIISKLKQEKVIVYKNSCFYVQN 212 (239)
T ss_dssp ----TTHHHHHHHHHTTSEEEETTEEEESC
T ss_pred CcHHHHHHHHHHHHHCCCEEEeCCEEEEcC
No 29
>1ZYB_A transcription regulator, CRP family; np_813211.1, Structural Genomics, Joint Center for Structural Genomics, JCSG, Protein Structure Initiative, PSI, TRANSCRIPTION REGULATOR; HET: GOL, MSE; 2.15A {Bacteroides thetaiotaomicron} SCOP: l.1.1.1, b.82.3.2, a.4.5.4
Probab=21.79 E-value=2.7e+02 Score=19.60 Aligned_cols=32 Identities=6% Similarity=0.094 Sum_probs=0.0 Template_Neff=12.300
Q ss_pred CCCChhHHHHHHHHHHcCCeeccCCceEEECC
Q FD01849515_024 10 GKNSRTGREVIARMRQNGDVLDVNGQTIFKAS 41 (109)
Q Consensus 10 gK~S~tGr~V~~RM~~eg~ir~~~~~~~~~~~ 41 (109)
+-+..+-..++.+++++|+|....+.+.+.+.
T Consensus 197 ~~s~~~~~r~l~~l~~~g~i~~~~~~i~i~~~ 228 (232)
T 1ZYB_A 197 DDTRLNISKTLNELQDNGLIELHRKEILIPDA 228 (232)
T ss_dssp TSCHHHHHHHHHHHHHTTSCEEETTEEEESCG
T ss_pred CCCHHHHHHHHHHHHHCCCEEEcCCEEEeCCH
No 30
>3I71_A Ethanolamine utilization protein eutK; helix-turn-helix, UNKNOWN FUNCTION; HET: FLC; 2.1A {Escherichia coli}
Probab=21.77 E-value=3.2e+02 Score=16.96 Aligned_cols=26 Identities=12% Similarity=0.244 Sum_probs=0.0 Template_Neff=9.300
Q ss_pred hhHHHHHHHHHHcCCeeccCCceEEE
Q FD01849515_024 14 RTGREVIARMRQNGDVLDVNGQTIFK 39 (109)
Q Consensus 14 ~tGr~V~~RM~~eg~ir~~~~~~~~~ 39 (109)
.+.+..++.|.++|+|....+...+.
T Consensus 33 ~~v~~~l~~L~~~g~v~r~~~~~~~~ 58 (68)
T 3I71_A 33 EKARNALEQLFSAGTLRKRSSRYRLK 58 (68)
T ss_dssp HHHHHHHHHHHHTTSEEEECCEEEEC
T ss_pred HHHHHHHHHHHHCCCEEEcCCceeeC
No 31
>4CYD_A PROBABLE TRANSCRIPTION REGULATOR; TRANSCRIPTION, TRANSCRIPTIONAL REGULATOR; HET: CMP, GOL; 1.82A {CORYNEBACTERIUM GLUTAMICUM}
Probab=21.76 E-value=3.5e+02 Score=18.56 Aligned_cols=27 Identities=11% Similarity=0.081 Sum_probs=0.0 Template_Neff=12.800
Q ss_pred hhHHHHHHHHHHcCCeeccCCceEEEC
Q FD01849515_024 14 RTGREVIARMRQNGDVLDVNGQTIFKA 40 (109)
Q Consensus 14 ~tGr~V~~RM~~eg~ir~~~~~~~~~~ 40 (109)
.+-..++..++++|.|+...+.+.+.+
T Consensus 190 ~~~~~~l~~l~~~g~i~~~~~~i~i~~ 216 (225)
T 4CYD_A 190 ETVNKALATFAHRGWIRLEGKSVLIVD 216 (225)
T ss_dssp HHHHHHHHHHHHTTSEEEETTEEEESC
T ss_pred HHHHHHHHHHHHcCcEEEcCcEEEEEC
No 32
>2GAU_A transcriptional regulator, Crp/Fnr family; Structural genomics, transcriptional regulator, Porphyromonas gingivalis, PSI, Protein Structure Initiative, Midwest Center for Structural Genomics, MCSG; 1.9A {Porphyromonas gingivalis} SCOP: b.82.3.2, a.4.5.4
Probab=21.53 E-value=3e+02 Score=19.06 Aligned_cols=27 Identities=0% Similarity=-0.125 Sum_probs=0.0 Template_Neff=12.700
Q ss_pred hhHHHHHHHHHHcCCeeccCCceEEEC
Q FD01849515_024 14 RTGREVIARMRQNGDVLDVNGQTIFKA 40 (109)
Q Consensus 14 ~tGr~V~~RM~~eg~ir~~~~~~~~~~ 40 (109)
.+-..++.+++++|.|+...+.+.+.+
T Consensus 195 ~~~~~~l~~l~~~g~i~~~~~~i~i~~ 221 (232)
T 2GAU_A 195 SNAIRTLSTFVSERMLALDGKRIKIID 221 (232)
T ss_dssp HHHHHHHHHHHHTTSEEEETTEEEESC
T ss_pred HHHHHHHHhhHHcCCEEEeCCEEEEcC
No 33
>PF20612.2 ; SHOCT_2 ; SHOCT domain
Probab=21.09 E-value=1.7e+02 Score=18.54 Aligned_cols=15 Identities=20% Similarity=0.045 Sum_probs=0.0 Template_Neff=7.200
Q ss_pred hHHHHHHHHHHcCCe
Q FD01849515_024 15 TGREVIARMRQNGDV 29 (109)
Q Consensus 15 tGr~V~~RM~~eg~i 29 (109)
+...++++|.++|+|
T Consensus 14 ~a~~~~~~ll~~glI 28 (53)
T A0A0E4C8X0_9FI 14 ITLCIARAMFQCGLI 28 (53)
T ss_pred HHHHHHHHHHHCCCC
No 34
>7Z42_F Polymerase basic protein 2; Influenza RNA-dependent RNA polymerase, transcription, cap-snatching, Pol II CTD, RNA BINDING PROTEIN; HET: SEP; 2.418A {Influenza B virus}
Probab=20.98 E-value=88 Score=30.35 Aligned_cols=19 Identities=42% Similarity=0.921 Sum_probs=0.0 Template_Neff=7.300
Q ss_pred hHhccCCC-----ccHHHHHHhhc
Q FD01849515_024 49 READMSHT-----TDAVTWWNNTG 67 (109)
Q Consensus 49 ~~aDMgH~-----~DAV~~WN~~G 67 (109)
...|++|. ..||+||+..|
T Consensus 91 ~~~D~~~grvlck~eavdww~~~~ 114 (798)
T 7Z42_F 91 NAEDIGTKGQMCSIAAVTWWNTYG 114 (798)
T ss_dssp CTTTCSSSCCEECHHHHHHHHHHS
T ss_pred cchhccCCcccccHhHHhHHHHhC
No 35
>7ETS_A Crp/Fnr family transcriptional regulator; cAMP receptor protein, Gardnerella Vaginalis, TRANSCRIPTION; 2.22A {Gardnerella vaginalis}
Probab=20.76 E-value=3.3e+02 Score=18.61 Aligned_cols=28 Identities=14% Similarity=0.112 Sum_probs=0.0 Template_Neff=12.900
Q ss_pred hhHHHHHHHHHHcCCeeccCCceEEECC
Q FD01849515_024 14 RTGREVIARMRQNGDVLDVNGQTIFKAS 41 (109)
Q Consensus 14 ~tGr~V~~RM~~eg~ir~~~~~~~~~~~ 41 (109)
.+-..++..++++|.|....+.+.+.+.
T Consensus 191 ~~~~r~l~~l~~~g~i~~~~~~~~i~~~ 218 (226)
T 7ETS_A 191 ETVNKALMDFAQRGWIKRHGRSIIIYQP 218 (226)
T ss_dssp HHHHHHHHHHHHTTSEEEETTEEEESCH
T ss_pred HHHHHHHHHHHHCCCEEEcCcEEEEeCH
No 36
>7XP1_A Probable transcriptional regulator; PmiR, 2-methylcitrate cycle, bacterial virulence, SIGNALING PROTEIN; HET: SO4, MIC; 2.5A {Pseudomonas aeruginosa PAO1}
Probab=20.38 E-value=3.7e+02 Score=18.86 Aligned_cols=32 Identities=22% Similarity=0.094 Sum_probs=0.0 Template_Neff=12.100
Q ss_pred CCCChhHHHHHHHHHHcCCeeccCCceEEECC
Q FD01849515_024 10 GKNSRTGREVIARMRQNGDVLDVNGQTIFKAS 41 (109)
Q Consensus 10 gK~S~tGr~V~~RM~~eg~ir~~~~~~~~~~~ 41 (109)
+-+-.|.++++.++..+|+|....+.-.+...
T Consensus 37 ~vs~~~v~~al~~L~~~g~v~~~~~~g~~v~~ 68 (218)
T 7XP1_A 37 GISRGPLREAIHRLEGLRLLVRVPHVGARVVS 68 (218)
T ss_dssp TCCHHHHHHHHHHHHHTTSEEECTTSCEEECC
T ss_pred CCChHHHHHHHHHHHhCCCEEEeCCCceEEec