Query NDGBJCOF_04003 Protein RhsD
Match_columns 118
No_of_seqs 31 out of 33
Neff 4.3039
Searched_HMMs 86581
Date Tue Feb 27 22:35:42 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/9884148.hhr -oa3m ../results/9884148.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 PF07481.15 ; DUF1521 ; Domain 46.2 90 0.001 25.5 4.7 32 85-116 66-103 (169)
2 6IFO_E AcrIIA2; anti-CRISPR, S 38.3 27 0.00031 27.6 0.7 35 56-94 10-44 (123)
3 6MCC_C Anti-CRISPR AcrIIA2 Hom 32.9 31 0.00036 27.5 0.3 35 56-94 8-42 (130)
4 6YWE_h Probable ribosomal prot 25.4 3.2E+02 0.0037 18.7 4.2 26 91-116 42-68 (98)
5 6NU2_m 39S ribosomal protein L 25.3 1.3E+02 0.0016 19.4 2.2 16 103-118 20-35 (45)
6 2RD1_A Putative outer membrane 24.0 3.4E+02 0.0039 18.7 4.0 33 85-117 8-43 (62)
7 PF18364.5 ; Molybdopterin_N ; 24.0 1.4E+02 0.0016 17.9 2.0 22 83-104 9-30 (41)
8 PF12992.11 ; DUF3876 ; Domain 22.2 1.8E+02 0.0021 20.2 2.5 20 98-117 19-38 (93)
9 2RB6_A Uncharacterized protein 21.8 3.9E+02 0.0045 18.2 4.0 33 85-117 8-43 (61)
10 PF11630.12 ; Anti-LPS-SCYG ; A 20.8 1.1E+02 0.0013 22.5 1.3 19 45-63 62-80 (100)
11 PF17388.6 ; GP24_25 ; Mycobact 20.3 2.7E+02 0.0031 21.8 3.3 24 57-96 12-35 (125)
No 1
>PF07481.15 ; DUF1521 ; Domain of Unknown Function (DUF1521)
Probab=46.24 E-value=90 Score=25.47 Aligned_cols=32 Identities=28% Similarity=0.485 Sum_probs=0.0 Template_Neff=5.700
Q ss_pred ECCCCCEEEecCCCCCCCc------eEEEEeCCcEEEe
Q NDGBJCOF_04003 85 TLPDGRTVIVRDGSSDGRP------TLEVQSGKNKIKF 116 (118)
Q Consensus 85 ~L~DGrtV~vR~~SsdgrP------TlEIq~~~~~iKi 116 (118)
.|+||..|.|-.......| .|-|..+...+.|
T Consensus 66 ~L~DGTKITv~t~~~~~~~~~~~~~~vtIt~G~qa~~V 103 (169)
T W0AEV6_9SPHN/8 66 TLENGTKVTIDTEQWGGNPDAYVASKVTVTNGDRAIVV 103 (169)
T ss_pred ECCCCCEEEEEcccCCCCCCceEEEEEEEEeCCEEEEE
No 2
>6IFO_E AcrIIA2; anti-CRISPR, SpyCas9, sgRNA, AcrIIA2, RNA BINDING PROTEIN-RNA complex; 3.313A {Streptococcus pyogenes M1 GAS}
Probab=38.28 E-value=27 Score=27.64 Aligned_cols=35 Identities=20% Similarity=0.173 Sum_probs=0.0 Template_Neff=2.300
Q ss_pred HHHHHHHHhhCChhhceeccCCCccccEEECCCCCEEEe
Q NDGBJCOF_04003 56 IDEANKDFDNLSPSDVKDIDNNYVTGRVGTLPDGRTVIV 94 (118)
Q Consensus 56 ~~~A~~dFd~l~p~nVk~i~~~~~~gr~G~L~DGrtV~v 94 (118)
|.+|+.+|.+|--..|...|. -..-.|.||.-|++
T Consensus 10 ~~eAi~EFeemt~k~v~~tP~----ia~~~LND~DYvvi 44 (123)
T 6IFO_E 10 YAEAMHEFINMVDDFEESTPD----FAKEVLHDSDYVVI 44 (123)
T ss_dssp HHHHHHHHHHHCCCCCSCCCC----CCHHHHHHCCEEEE
T ss_pred HHHHHHHHHHHhccchhcCch----HHHHhccCCCEEEE
No 3
>6MCC_C Anti-CRISPR AcrIIA2 Homolog; CRISPR-Cas, Cas9, Cas9 inhibitors, anti-CRISPR, AcrIIA2, bacteriophage, gene editing, HYDROLASE-RNA-VIRAL PROTEIN complex; HET: GTP;{Streptococcus pyogenes M1 GAS}
Probab=32.93 E-value=31 Score=27.48 Aligned_cols=35 Identities=17% Similarity=0.224 Sum_probs=0.0 Template_Neff=2.200
Q ss_pred HHHHHHHHhhCChhhceeccCCCccccEEECCCCCEEEe
Q NDGBJCOF_04003 56 IDEANKDFDNLSPSDVKDIDNNYVTGRVGTLPDGRTVIV 94 (118)
Q Consensus 56 ~~~A~~dFd~l~p~nVk~i~~~~~~gr~G~L~DGrtV~v 94 (118)
|.+|+.+|.+|--.+|...|. -..-.|.||.-|++
T Consensus 8 ~~eAi~EFeemt~k~v~~tP~----ia~~~LND~DYvvi 42 (130)
T 6MCC_C 8 FYQAISEFEAMTGKDVERTPQ----IADEVLNDAEYIAF 42 (130)
T ss_dssp HHHHHHHHHHHSCCCBCCCCC----CCHHHHTTCSEEEE
T ss_pred HHHHHHHHHHHhCCchhcChh----HHHHHhccCCeEEE
No 4
>6YWE_h Probable ribosomal protein YmL44, mitochondrial; Neurospora crassa, translating Mitoribosomes, tRNA, mRNA, mL108, TRANSLATION; HET: NAD, ATP, SPM, K, MG;{Neurospora crassa}
Probab=25.38 E-value=3.2e+02 Score=18.72 Aligned_cols=26 Identities=19% Similarity=0.215 Sum_probs=0.0 Template_Neff=9.000
Q ss_pred EEEecCCCCCCCceEEEEe-CCcEEEe
Q NDGBJCOF_04003 91 TVIVRDGSSDGRPTLEVQS-GKNKIKF 116 (118)
Q Consensus 91 tV~vR~~SsdgrPTlEIq~-~~~~iKi 116 (118)
.|.|+..+....|+|++.- ++....|
T Consensus 42 ~v~v~~~~~~~~P~i~v~f~dG~~~~i 68 (98)
T 6YWE_h 42 TTQLLPRNSTETPLLYVKFKDGKEMNL 68 (98)
T ss_pred EEEEcCCCCCCCCEEEEEECCCCEEEE
No 5
>6NU2_m 39S ribosomal protein L55, mitochondrial; mitochondrial ribosome recycling Factor, mtRRF, 55S, RIBOSOME; HET: MG; 3.9A {Homo sapiens}
Probab=25.28 E-value=1.3e+02 Score=19.42 Aligned_cols=16 Identities=38% Similarity=0.667 Sum_probs=0.0 Template_Neff=5.300
Q ss_pred ceEEEEeCCcEEEecC
Q NDGBJCOF_04003 103 PTLEVQSGKNKIKFRY 118 (118)
Q Consensus 103 PTlEIq~~~~~iKiR~ 118 (118)
||+-++.++..|.|||
T Consensus 20 p~~lv~pDGSti~iry 35 (45)
T 6NU2_m 20 PVLLVKQDGSTIHIRY 35 (45)
T ss_pred CeEEEeCCCCEEECCC
No 6
>2RD1_A Putative outer membrane lipoprotein; NESG, Q7CQI7, StR87A, Structural Genomics, PSI-2, Protein Structure Initiative, Northeast Structural Genomics Consortium, Lipoprotein, UNKNOWN FUNCTION; HET: MSE; 2.3A {Salmonella typhimurium LT2} SCOP: l.1.1.1, b.38.1.6
Probab=24.02 E-value=3.4e+02 Score=18.72 Aligned_cols=33 Identities=12% Similarity=0.185 Sum_probs=0.0 Template_Neff=5.500
Q ss_pred ECCCCCEEEe--cCCCCCCCceEEEEe-CCcEEEec
Q NDGBJCOF_04003 85 TLPDGRTVIV--RDGSSDGRPTLEVQS-GKNKIKFR 117 (118)
Q Consensus 85 ~L~DGrtV~v--R~~SsdgrPTlEIq~-~~~~iKiR 117 (118)
+|.||++|+. .|.-...--++++.+ .++...|.
T Consensus 8 tt~dG~~i~t~gkP~~D~~tG~y~y~D~~G~~~~I~ 43 (62)
T 2RD1_A 8 TTKNGQTIVTQGKPQLDKETGMTSYTDQEGNQREIN 43 (62)
T ss_dssp EETTSCEEEEESCCEEETTTTEEEEECTTSCEEEEE
T ss_pred EcCCCCEEEeCCCceEeCCCCcEEEEcCCCCEEEec
No 7
>PF18364.5 ; Molybdopterin_N ; Molybdopterin oxidoreductase N-terminal domain
Probab=24.00 E-value=1.4e+02 Score=17.93 Aligned_cols=22 Identities=36% Similarity=0.484 Sum_probs=0.0 Template_Neff=7.500
Q ss_pred EEECCCCCEEEecCCCCCCCce
Q NDGBJCOF_04003 83 VGTLPDGRTVIVRDGSSDGRPT 104 (118)
Q Consensus 83 ~G~L~DGrtV~vR~~SsdgrPT 104 (118)
.....||+.|.++|-..|..|+
T Consensus 9 ~~~~~~g~i~~~~p~~~D~~Ps 30 (41)
T A0A127EPZ9_9HY 9 LAEVEDGRIVGVRPFERDPDPS 30 (41)
T ss_pred EEEEECCeEEEEeeCCCCCCCC
No 8
>PF12992.11 ; DUF3876 ; Domain of unknown function, B. Theta Gene description (DUF3876)
Probab=22.24 E-value=1.8e+02 Score=20.22 Aligned_cols=20 Identities=15% Similarity=0.169 Sum_probs=0.0 Template_Neff=8.200
Q ss_pred CCCCCceEEEEeCCcEEEec
Q NDGBJCOF_04003 98 SSDGRPTLEVQSGKNKIKFR 117 (118)
Q Consensus 98 SsdgrPTlEIq~~~~~iKiR 117 (118)
|.+++|+|+|..++....|+
T Consensus 19 s~~~~~~~~I~r~g~~f~i~ 38 (93)
T Q8A5A2_BACTN/4 19 SVNLNPTVIIYRNGKEYLLS 38 (93)
T ss_pred ECCCCCcEEEEECCcEEEEE
No 9
>2RB6_A Uncharacterized protein; NESG, Q8EI81_SHEON, Structural Genomics, PSI-2, Protein Structure Initiative, Northeast Structural Genomics Consortium, UNKNOWN FUNCTION; HET: MSE; 2.5A {Shewanella oneidensis} SCOP: l.1.1.1, b.38.1.6
Probab=21.78 E-value=3.9e+02 Score=18.24 Aligned_cols=33 Identities=6% Similarity=0.119 Sum_probs=0.0 Template_Neff=5.800
Q ss_pred ECCCCCEEEe--cCCCCCCCceEEEEe-CCcEEEec
Q NDGBJCOF_04003 85 TLPDGRTVIV--RDGSSDGRPTLEVQS-GKNKIKFR 117 (118)
Q Consensus 85 ~L~DGrtV~v--R~~SsdgrPTlEIq~-~~~~iKiR 117 (118)
+|.||++|+. .|.-...--++++.+ +++...|.
T Consensus 8 tt~dG~~i~t~gkP~~D~~tg~y~f~D~~G~~~~I~ 43 (61)
T 2RB6_A 8 STKDGKMITSDSKPKLDKTTGMYLYYDEDGREVMIK 43 (61)
T ss_dssp EETTSCEEEESSCCEEETTTTEEEEECTTSCEEEEE
T ss_pred ECCCCCEEEcCCCCeEeCCCCcEEEECCCCCEEEEe
No 10
>PF11630.12 ; Anti-LPS-SCYG ; Anti-lipopolysaccharide factor/Scygonadin
Probab=20.76 E-value=1.1e+02 Score=22.49 Aligned_cols=19 Identities=26% Similarity=0.504 Sum_probs=0.0 Template_Neff=6.600
Q ss_pred ccccccccCCCHHHHHHHH
Q NDGBJCOF_04003 45 GRSRLYERPGGIDEANKDF 63 (118)
Q Consensus 45 Grs~q~ek~GG~~~A~~dF 63 (118)
|+++-..+.|-++.|++||
T Consensus 62 G~s~~~sr~ga~e~Ai~df 80 (100)
T Q1XI22_PENJP/2 62 GEADTRSRSGVVGKTIQDF 80 (100)
T ss_pred EEEeeeccccHHHHHHHHH
No 11
>PF17388.6 ; GP24_25 ; Mycobacteriophage tail assembly protein
Probab=20.26 E-value=2.7e+02 Score=21.81 Aligned_cols=24 Identities=29% Similarity=0.378 Sum_probs=0.0 Template_Neff=5.500
Q ss_pred HHHHHHHhhCChhhceeccCCCccccEEECCCCCEEEecC
Q NDGBJCOF_04003 57 DEANKDFDNLSPSDVKDIDNNYVTGRVGTLPDGRTVIVRD 96 (118)
Q Consensus 57 ~~A~~dFd~l~p~nVk~i~~~~~~gr~G~L~DGrtV~vR~ 96 (118)
++|.+.| ....=.|+||.+|++|+
T Consensus 12 aeae~ky----------------ap~~i~l~dg~~v~Lrn 35 (125)
T A0A222YXX7_9CA 12 SETEKKF----------------APVKIGLSDGSEVELKS 35 (125)
T ss_pred HHHHHHh----------------CCeEEEcCCCCEEEecc