Query 032882
Match_columns 131
No_of_seqs 242 out of 1103
Neff 5.1
Searched_HMMs 29240
Date Mon Mar 25 11:19:34 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032882.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/032882hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2ctt_A DNAJ homolog subfamily 99.6 4E-15 1.4E-19 104.4 6.5 74 49-124 8-94 (104)
2 1exk_A DNAJ protein; extended 99.4 2.1E-13 7E-18 90.7 5.8 65 58-124 4-77 (79)
3 1nlt_A Protein YDJ1, mitochond 99.4 7.6E-13 2.6E-17 105.5 6.0 78 48-125 17-110 (248)
4 1exk_A DNAJ protein; extended 97.8 1.1E-05 3.8E-10 52.9 2.4 38 65-112 28-76 (79)
5 3lcz_A YCZA, inhibitor of trap 97.7 1.1E-05 3.7E-10 51.0 1.6 28 95-124 6-36 (53)
6 2ctt_A DNAJ homolog subfamily 97.5 4.3E-05 1.5E-09 52.9 2.8 40 64-113 44-94 (104)
7 2bx9_A Anti-trap, AT, tryptoph 97.1 0.00021 7.3E-09 44.9 1.8 28 65-92 9-39 (53)
8 3lcz_A YCZA, inhibitor of trap 97.0 0.00022 7.4E-09 44.9 1.8 29 64-92 8-39 (53)
9 2bx9_A Anti-trap, AT, tryptoph 96.9 0.00048 1.6E-08 43.3 2.5 24 101-124 10-36 (53)
10 1nlt_A Protein YDJ1, mitochond 96.7 0.00046 1.6E-08 54.6 1.4 40 65-112 54-108 (248)
11 3pmq_A Decaheme cytochrome C M 88.9 0.068 2.3E-06 48.2 -0.4 74 47-120 169-280 (669)
12 3nyb_B Protein AIR2; polya RNA 73.1 1.7 5.9E-05 29.0 1.9 52 64-117 4-65 (83)
13 1pft_A TFIIB, PFTFIIBN; N-term 54.1 6.3 0.00022 23.1 1.7 8 110-117 23-30 (50)
14 2r6f_A Excinuclease ABC subuni 37.8 23 0.00078 33.2 3.5 31 78-110 755-786 (972)
15 2vf7_A UVRA2, excinuclease ABC 37.1 21 0.00071 32.7 3.1 31 78-110 640-671 (842)
16 1dl6_A Transcription factor II 33.1 19 0.00066 22.1 1.6 8 110-117 29-36 (58)
17 2ygr_A Uvrabc system protein A 29.4 37 0.0013 31.9 3.4 31 78-110 773-804 (993)
18 2k0a_A PRE-mRNA-splicing facto 28.5 12 0.00039 26.6 -0.1 44 64-113 21-71 (109)
19 3k1f_M Transcription initiatio 26.6 26 0.0009 27.0 1.6 9 109-117 40-48 (197)
20 3agx_A DNAJ homolog subfamily 24.4 18 0.00061 26.7 0.3 34 48-90 8-41 (181)
21 4bbr_M Transcription initiatio 24.4 30 0.001 28.1 1.6 9 109-117 40-48 (345)
22 1qyp_A RNA polymerase II; tran 23.7 89 0.0031 18.5 3.4 6 101-106 44-49 (57)
23 2hf1_A Tetraacyldisaccharide-1 23.6 41 0.0014 21.4 1.9 8 110-117 25-32 (68)
24 2jny_A Uncharacterized BCR; st 23.1 41 0.0014 21.4 1.8 8 110-117 27-34 (67)
25 2jr6_A UPF0434 protein NMA0874 23.1 42 0.0014 21.4 1.8 8 110-117 25-32 (68)
26 2jne_A Hypothetical protein YF 22.6 78 0.0027 22.0 3.3 43 66-119 33-89 (101)
27 1tfi_A Transcriptional elongat 21.2 1.3E+02 0.0043 17.8 3.7 16 78-93 11-26 (50)
28 2jrp_A Putative cytoplasmic pr 20.8 1.7E+02 0.0056 19.4 4.5 19 66-84 3-26 (81)
29 2pk7_A Uncharacterized protein 20.4 48 0.0016 21.1 1.7 8 110-117 25-32 (69)
No 1
>2ctt_A DNAJ homolog subfamily A member 3; ZING finger, beta-hairpin, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=99.56 E-value=4e-15 Score=104.41 Aligned_cols=74 Identities=27% Similarity=0.692 Sum_probs=61.0
Q ss_pred eEEeeecCcc----ceeeecceeCCCCCCCCcc------cCCCCCCCCEEEEEeecceEEcceeCCCCCccceEE---CC
Q 032882 49 LKVKATDSNQ----SSTKTNSIICPDCDGNGAK------QCSQCKGNGINSVDHFNGQFKAGGLCWLCRGKREIL---CG 115 (131)
Q Consensus 49 ~~~~~~~~~~----~~~~~r~v~C~~C~GsG~~------~C~~C~GsG~i~~~~~~g~~q~~~~C~~C~G~G~ii---C~ 115 (131)
|+|.|.|+.. .+++++.+.|+.|+|+|++ +|+.|+|+|++...+ +.|+.+++|+.|+|+|+++ |+
T Consensus 8 l~vslee~~~G~~~~i~~~~~~~C~~C~G~G~~~g~~~~~C~~C~G~G~~~~~~--G~~~~~~~C~~C~G~G~~i~~~C~ 85 (104)
T 2ctt_A 8 MELTFNQAAKGVNKEFTVNIMDTCERCNGKGNEPGTKVQHCHYCGGSGMETINT--GPFVMRSTCRRCGGRGSIIISPCV 85 (104)
T ss_dssp CCCCCSSCCSSSCTTCCSSCCEECSSSSSSSSCTTCCCEECSSSSSSCEEEEEE--TTEEEEEECSSSSSSSEECSSCCS
T ss_pred EEEEHHHHcCCCEEEEEeeeeeECCCCcCCccCCCCCCccCCCCCCCEEEEEEe--CCEEEEEECCcCCCcceECCCcCC
Confidence 5556665554 4888999999999999964 899999999987665 3344459999999999998 99
Q ss_pred CCCCCeEEe
Q 032882 116 NCNGAGFMG 124 (131)
Q Consensus 116 ~C~G~G~v~ 124 (131)
.|+|.|++.
T Consensus 86 ~C~G~G~v~ 94 (104)
T 2ctt_A 86 VCRGAGQAK 94 (104)
T ss_dssp SSSSCSEEC
T ss_pred CCCCeeEEE
Confidence 999999885
No 2
>1exk_A DNAJ protein; extended beta-hairpin, CXXCXGXG, zinc-binding motif, chaperone; NMR {Escherichia coli} SCOP: g.54.1.1
Probab=99.42 E-value=2.1e-13 Score=90.70 Aligned_cols=65 Identities=29% Similarity=0.724 Sum_probs=55.1
Q ss_pred cceeeecceeCCCCCCCCcc------cCCCCCCCCEEEEEeecceEEcceeCCCCCccceEE---CCCCCCCeEEe
Q 032882 58 QSSTKTNSIICPDCDGNGAK------QCSQCKGNGINSVDHFNGQFKAGGLCWLCRGKREIL---CGNCNGAGFMG 124 (131)
Q Consensus 58 ~~~~~~r~v~C~~C~GsG~~------~C~~C~GsG~i~~~~~~g~~q~~~~C~~C~G~G~ii---C~~C~G~G~v~ 124 (131)
..+.+++.+.|+.|+|+|+. +|+.|+|+|++...+ +.++...+|+.|+|+|+++ |+.|+|.|++.
T Consensus 4 ~~i~~~~~~~C~~C~G~G~~~~~~~~~C~~C~G~G~~~~~~--g~~~~~~~C~~C~G~G~~~~~~C~~C~G~G~~~ 77 (79)
T 1exk_A 4 KEIRIPTLEECDVCHGSGAKPGTQPQTCPTCHGSGQVQMRQ--GFFAVQQTCPHCQGRGTLIKDPCNKCHGHGRVE 77 (79)
T ss_dssp TSCCCCCEEECGGGTTTSBCSSSCCEECTTTTTSSEEEEEE--TTEEEEEECTTTTTSSEECSSBCGGGTTSSEEE
T ss_pred EEEEcccceECCCCcccccCCCccCCCCCCCcCeEEEEEEc--CCCEEeeECcCCCCccEECCCcCCCCCCeEEEe
Confidence 34788999999999999973 899999999987654 3333448999999999997 99999999985
No 3
>1nlt_A Protein YDJ1, mitochondrial protein import protein MAS5; beta-strands, chaperone, heat shock, mitochondrion; 2.70A {Saccharomyces cerevisiae} SCOP: b.4.1.1 b.4.1.1 g.54.1.1
Probab=99.35 E-value=7.6e-13 Score=105.49 Aligned_cols=78 Identities=27% Similarity=0.680 Sum_probs=63.5
Q ss_pred eeEEeeecCccc----eeeecceeCCCCCCCCcc-----cCCCCCCCCEEEEEeecce--EEcceeCCCCCccceEE---
Q 032882 48 SLKVKATDSNQS----STKTNSIICPDCDGNGAK-----QCSQCKGNGINSVDHFNGQ--FKAGGLCWLCRGKREIL--- 113 (131)
Q Consensus 48 ~~~~~~~~~~~~----~~~~r~v~C~~C~GsG~~-----~C~~C~GsG~i~~~~~~g~--~q~~~~C~~C~G~G~ii--- 113 (131)
.|++.+.|+..+ +++++.+.|++|+|+|++ +|+.|+|+|++...++++. ++.+.+|+.|+|+|+++
T Consensus 17 ~l~vslee~~~G~~k~i~~~r~~~C~~C~G~G~~~g~~~~C~~C~G~G~~~~~~~~g~~~~~~~~~C~~C~G~G~~i~~~ 96 (248)
T 1nlt_A 17 EISASLEELYKGRTAKLALNKQILCKECEGRGGKKGAVKKCTSCNGQGIKFVTRQMGPMIQRFQTECDVCHGTGDIIDPK 96 (248)
T ss_dssp EEEECTTHHHHCEEEEEEEEEEEECTTTTTCSBSTTTCCCCTTSSSSSCEEEEEESSSEEEEEECSCTTCSSSSSCCCTT
T ss_pred EEEecHHHhcCCceEEEEeeEEEeCCCCcCccCCCCCCccCCCCCCCcEEEEEEecCceEEEEEEcCCCCCCcCEEeccC
Confidence 367777776554 778899999999999976 8999999999887766532 23348999999999877
Q ss_pred --CCCCCCCeEEeE
Q 032882 114 --CGNCNGAGFMGG 125 (131)
Q Consensus 114 --C~~C~G~G~v~g 125 (131)
|+.|+|+|++..
T Consensus 97 ~~C~~C~G~g~~~~ 110 (248)
T 1nlt_A 97 DRCKSCNGKKVENE 110 (248)
T ss_dssp SBCSSSTTSCEEEE
T ss_pred CCCcccCCCceEee
Confidence 999999998764
No 4
>1exk_A DNAJ protein; extended beta-hairpin, CXXCXGXG, zinc-binding motif, chaperone; NMR {Escherichia coli} SCOP: g.54.1.1
Probab=97.77 E-value=1.1e-05 Score=52.92 Aligned_cols=38 Identities=32% Similarity=0.868 Sum_probs=30.0
Q ss_pred ceeCCCCCCCCcc-----------cCCCCCCCCEEEEEeecceEEcceeCCCCCccceE
Q 032882 65 SIICPDCDGNGAK-----------QCSQCKGNGINSVDHFNGQFKAGGLCWLCRGKREI 112 (131)
Q Consensus 65 ~v~C~~C~GsG~~-----------~C~~C~GsG~i~~~~~~g~~q~~~~C~~C~G~G~i 112 (131)
...|+.|+|+|.. +|+.|+|+|.+.. .+|+.|+|.|.+
T Consensus 28 ~~~C~~C~G~G~~~~~~g~~~~~~~C~~C~G~G~~~~----------~~C~~C~G~G~~ 76 (79)
T 1exk_A 28 PQTCPTCHGSGQVQMRQGFFAVQQTCPHCQGRGTLIK----------DPCNKCHGHGRV 76 (79)
T ss_dssp CEECTTTTTSSEEEEEETTEEEEEECTTTTTSSEECS----------SBCGGGTTSSEE
T ss_pred CCCCCCCcCeEEEEEEcCCCEEeeECcCCCCccEECC----------CcCCCCCCeEEE
Confidence 4689999999853 6999999997531 679999998876
No 5
>3lcz_A YCZA, inhibitor of trap, regulated by T-box (Trp) seque; anti-trap, tryptophan RNA-binding attenuation PROT transcription attenuation; 2.06A {Bacillus licheniformis} PDB: 3ld0_A
Probab=97.71 E-value=1.1e-05 Score=50.96 Aligned_cols=28 Identities=25% Similarity=0.571 Sum_probs=23.1
Q ss_pred ceEEcceeCCCCCccceEE---CCCCCCCeEEe
Q 032882 95 GQFKAGGLCWLCRGKREIL---CGNCNGAGFMG 124 (131)
Q Consensus 95 g~~q~~~~C~~C~G~G~ii---C~~C~G~G~v~ 124 (131)
++++ .+|+.|+|+|+++ |+.|+|+|++.
T Consensus 6 qq~~--~~C~~C~GsG~~i~~~C~~C~G~G~v~ 36 (53)
T 3lcz_A 6 DDLE--TTCPNCNGSGREEPEPCPKCLGKGVIL 36 (53)
T ss_dssp HHHE--EECTTTTTSCEETTEECTTTTTSSEEE
T ss_pred Ccee--ccCcCCcccccCCCCcCCCCCCcEEEE
Confidence 3455 8899999999987 99999999875
No 6
>2ctt_A DNAJ homolog subfamily A member 3; ZING finger, beta-hairpin, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=97.54 E-value=4.3e-05 Score=52.95 Aligned_cols=40 Identities=30% Similarity=0.766 Sum_probs=33.2
Q ss_pred cceeCCCCCCCCcc-----------cCCCCCCCCEEEEEeecceEEcceeCCCCCccceEE
Q 032882 64 NSIICPDCDGNGAK-----------QCSQCKGNGINSVDHFNGQFKAGGLCWLCRGKREIL 113 (131)
Q Consensus 64 r~v~C~~C~GsG~~-----------~C~~C~GsG~i~~~~~~g~~q~~~~C~~C~G~G~ii 113 (131)
....|+.|+|+|.. +|+.|+|+|.++. .+|+.|+|.|.+.
T Consensus 44 ~~~~C~~C~G~G~~~~~~G~~~~~~~C~~C~G~G~~i~----------~~C~~C~G~G~v~ 94 (104)
T 2ctt_A 44 KVQHCHYCGGSGMETINTGPFVMRSTCRRCGGRGSIII----------SPCVVCRGAGQAK 94 (104)
T ss_dssp CCEECSSSSSSCEEEEEETTEEEEEECSSSSSSSEECS----------SCCSSSSSCSEEC
T ss_pred CCccCCCCCCCEEEEEEeCCEEEEEECCcCCCcceECC----------CcCCCCCCeeEEE
Confidence 35789999999953 7999999998642 7899999999863
No 7
>2bx9_A Anti-trap, AT, tryptophan RNA-binding attenuator protein-inhibit protein; transcription regulation; 2.80A {Bacillus subtilis} PDB: 2ko8_A* 2zp8_E* 2zp9_C*
Probab=97.05 E-value=0.00021 Score=44.93 Aligned_cols=28 Identities=29% Similarity=0.901 Sum_probs=21.5
Q ss_pred ceeCCCCCCCCcc---cCCCCCCCCEEEEEe
Q 032882 65 SIICPDCDGNGAK---QCSQCKGNGINSVDH 92 (131)
Q Consensus 65 ~v~C~~C~GsG~~---~C~~C~GsG~i~~~~ 92 (131)
...|+.|+|+|.. +|+.|+|+|++...+
T Consensus 9 ~~~C~~C~GsG~~~~~~C~~C~G~G~v~~~q 39 (53)
T 2bx9_A 9 EVACPKCERAGEIEGTPCPACSGKGVILTAQ 39 (53)
T ss_dssp EEECTTTTTSSEETTEECTTTTTSSEEECHH
T ss_pred cccCCCCcceeccCCCCCccCCCCccEEEEe
Confidence 4578888888876 788888888876543
No 8
>3lcz_A YCZA, inhibitor of trap, regulated by T-box (Trp) seque; anti-trap, tryptophan RNA-binding attenuation PROT transcription attenuation; 2.06A {Bacillus licheniformis} PDB: 3ld0_A
Probab=97.05 E-value=0.00022 Score=44.91 Aligned_cols=29 Identities=31% Similarity=0.935 Sum_probs=23.9
Q ss_pred cceeCCCCCCCCcc---cCCCCCCCCEEEEEe
Q 032882 64 NSIICPDCDGNGAK---QCSQCKGNGINSVDH 92 (131)
Q Consensus 64 r~v~C~~C~GsG~~---~C~~C~GsG~i~~~~ 92 (131)
-...|+.|+|+|.. +|+.|+|.|++...+
T Consensus 8 ~~~~C~~C~GsG~~i~~~C~~C~G~G~v~~~~ 39 (53)
T 3lcz_A 8 LETTCPNCNGSGREEPEPCPKCLGKGVILTAQ 39 (53)
T ss_dssp HEEECTTTTTSCEETTEECTTTTTSSEEECHH
T ss_pred eeccCcCCcccccCCCCcCCCCCCcEEEEEEe
Confidence 35689999999986 899999999876544
No 9
>2bx9_A Anti-trap, AT, tryptophan RNA-binding attenuator protein-inhibit protein; transcription regulation; 2.80A {Bacillus subtilis} PDB: 2ko8_A* 2zp8_E* 2zp9_C*
Probab=96.92 E-value=0.00048 Score=43.29 Aligned_cols=24 Identities=33% Similarity=0.656 Sum_probs=14.6
Q ss_pred eeCCCCCccceEE---CCCCCCCeEEe
Q 032882 101 GLCWLCRGKREIL---CGNCNGAGFMG 124 (131)
Q Consensus 101 ~~C~~C~G~G~ii---C~~C~G~G~v~ 124 (131)
.+|+.|+|+|.++ |+.|+|.|.+.
T Consensus 10 ~~C~~C~GsG~~~~~~C~~C~G~G~v~ 36 (53)
T 2bx9_A 10 VACPKCERAGEIEGTPCPACSGKGVIL 36 (53)
T ss_dssp EECTTTTTSSEETTEECTTTTTSSEEE
T ss_pred ccCCCCcceeccCCCCCccCCCCccEE
Confidence 4566666666555 66666666553
No 10
>1nlt_A Protein YDJ1, mitochondrial protein import protein MAS5; beta-strands, chaperone, heat shock, mitochondrion; 2.70A {Saccharomyces cerevisiae} SCOP: b.4.1.1 b.4.1.1 g.54.1.1
Probab=96.70 E-value=0.00046 Score=54.61 Aligned_cols=40 Identities=33% Similarity=0.711 Sum_probs=29.7
Q ss_pred ceeCCCCCCCCcc---------------cCCCCCCCCEEEEEeecceEEcceeCCCCCccceE
Q 032882 65 SIICPDCDGNGAK---------------QCSQCKGNGINSVDHFNGQFKAGGLCWLCRGKREI 112 (131)
Q Consensus 65 ~v~C~~C~GsG~~---------------~C~~C~GsG~i~~~~~~g~~q~~~~C~~C~G~G~i 112 (131)
...|+.|+|+|.. +|+.|+|+|.+... ..+|+.|+|.|.+
T Consensus 54 ~~~C~~C~G~G~~~~~~~~g~~~~~~~~~C~~C~G~G~~i~~--------~~~C~~C~G~g~~ 108 (248)
T 1nlt_A 54 VKKCTSCNGQGIKFVTRQMGPMIQRFQTECDVCHGTGDIIDP--------KDRCKSCNGKKVE 108 (248)
T ss_dssp CCCCTTSSSSSCEEEEEESSSEEEEEECSCTTCSSSSSCCCT--------TSBCSSSTTSCEE
T ss_pred CccCCCCCCCcEEEEEEecCceEEEEEEcCCCCCCcCEEecc--------CCCCcccCCCceE
Confidence 4789999988852 78888888875421 2678888888865
No 11
>3pmq_A Decaheme cytochrome C MTRF; greek KEY, C type cytochrome, outer membrane, electron trans; HET: HEC; 3.20A {Shewanella oneidensis}
Probab=88.89 E-value=0.068 Score=48.17 Aligned_cols=74 Identities=20% Similarity=0.400 Sum_probs=49.9
Q ss_pred eeeEEeeecCcc----ceeeecceeCCCCCCCCcc---------cCCCCCCCCEEEEE--------eec--ceE-Eccee
Q 032882 47 RSLKVKATDSNQ----SSTKTNSIICPDCDGNGAK---------QCSQCKGNGINSVD--------HFN--GQF-KAGGL 102 (131)
Q Consensus 47 ~~~~~~~~~~~~----~~~~~r~v~C~~C~GsG~~---------~C~~C~GsG~i~~~--------~~~--g~~-q~~~~ 102 (131)
..+++.+.|+.. .+++.+.+.|..|+|+|++ +|+.|+|+...... +.+ +.+ +....
T Consensus 169 ~~l~i~feeA~~G~~k~i~v~~~~~C~tCHGsGA~~Gt~~~~~~tC~tCHGs~~~~~~~~~~~~~iH~iH~G~fP~~~~~ 248 (669)
T 3pmq_A 169 TNQHYDWQSSGNMLAYTRNLVSIDTCNSCHSNLAFHGGRYNQVETCVTCHNSKKVSNAADIFPQMIHSKHLTGFPQSISN 248 (669)
T ss_dssp CCCEEEEECSSSSCCCCCCCCCSHHHHHHHSSCCTTTTTSCSSSCSTTTSSTTTCCCSSCSHHHHHHHHTTSSCSSCTTC
T ss_pred EEEEEEhHHhhCCCceEEEeccCCcCCCCCCCCCcCCccCcCCccCCCCCCCcccCCccccccceeeeeeccCCCCccCc
Confidence 446667666554 4788899999999999864 89999999421111 001 222 22378
Q ss_pred CCCCCccce----------EE----CCCCCCC
Q 032882 103 CWLCRGKRE----------IL----CGNCNGA 120 (131)
Q Consensus 103 C~~C~G~G~----------ii----C~~C~G~ 120 (131)
|..|+..+. .. |..|+..
T Consensus 249 C~~CH~~~~~la~~~~w~~~ps~~aC~sCH~~ 280 (669)
T 3pmq_A 249 CQTCHADNPDLADRQNWYRVPTMEACGACHTQ 280 (669)
T ss_dssp CTTTSCCCTTCCSCSCTTTCCCHHHHHHHCCS
T ss_pred chhhcCCccccccccccccCCchhhhhhccCC
Confidence 999999886 11 9999864
No 12
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=73.06 E-value=1.7 Score=29.00 Aligned_cols=52 Identities=13% Similarity=0.259 Sum_probs=28.0
Q ss_pred cceeCCCCCCCCcc--------cCCCCCCCCEEEEEeecceEEcceeCCCCCccceEE--CCCC
Q 032882 64 NSIICPDCDGNGAK--------QCSQCKGNGINSVDHFNGQFKAGGLCWLCRGKREIL--CGNC 117 (131)
Q Consensus 64 r~v~C~~C~GsG~~--------~C~~C~GsG~i~~~~~~g~~q~~~~C~~C~G~G~ii--C~~C 117 (131)
+.+.|..|...|-. +|-.|...|.+........ ....|..|+..|.+- |+.=
T Consensus 4 k~~~C~~Cg~~GH~~~~Cp~~~rcY~c~~~gh~~~~c~~p~--~~~~CYnCG~~GH~~rdC~~~ 65 (83)
T 3nyb_B 4 KKVQCTLCKSKKHSKERCPSIWRAYILVDDNEKAKPKVLPF--HTIYCYNCGGKGHFGDDCKEK 65 (83)
T ss_dssp ---CCSSSCCSSSCGGGCGGGTCCCCBC---------------CCCBCSSSSCBSSCGGGCSSC
T ss_pred ccCCCCCCCCCCCccccCCCcccccccccCCcccccccCCC--CCCeecccCCCCcCcccCCcc
Confidence 67889999888865 5677887776543221111 237899999999876 7753
No 13
>1pft_A TFIIB, PFTFIIBN; N-terminal domain, transcription initiation factor; NMR {Pyrococcus furiosus} SCOP: g.41.3.1
Probab=54.13 E-value=6.3 Score=23.13 Aligned_cols=8 Identities=50% Similarity=1.360 Sum_probs=4.1
Q ss_pred ceEECCCC
Q 032882 110 REILCGNC 117 (131)
Q Consensus 110 G~iiC~~C 117 (131)
|..+|..|
T Consensus 23 gelvC~~C 30 (50)
T 1pft_A 23 GEIVCAKC 30 (50)
T ss_dssp TEEEESSS
T ss_pred CeEECccc
Confidence 44445555
No 14
>2r6f_A Excinuclease ABC subunit A; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, at cassette, DNA damage, DNA excision; HET: ADP; 3.20A {Geobacillus stearothermophilus} PDB: 3uwx_A
Probab=37.83 E-value=23 Score=33.19 Aligned_cols=31 Identities=32% Similarity=0.757 Sum_probs=22.7
Q ss_pred cCCCCCCCCEEEEEeec-ceEEcceeCCCCCccc
Q 032882 78 QCSQCKGNGINSVDHFN-GQFKAGGLCWLCRGKR 110 (131)
Q Consensus 78 ~C~~C~GsG~i~~~~~~-g~~q~~~~C~~C~G~G 110 (131)
+|..|.|.|.+.....+ ..+. .+|+.|.|..
T Consensus 755 rC~~C~g~G~i~~em~fl~~v~--~~ce~c~G~r 786 (972)
T 2r6f_A 755 RCEACHGDGIIKIEMHFLPDVY--VPCEVCHGKR 786 (972)
T ss_dssp BCTTTTTCSEEEECCSSSCCEE--EECTTTTTCC
T ss_pred cccccccccceeeehhcccccc--cccccccccc
Confidence 69999999998766543 3444 7888888763
No 15
>2vf7_A UVRA2, excinuclease ABC, subunit A.; DNA-binding protein, nucleotide-binding, zinc-binding domain, SOS response, metal-binding; HET: ADP; 2.30A {Deinococcus radiodurans} PDB: 2vf8_A*
Probab=37.14 E-value=21 Score=32.73 Aligned_cols=31 Identities=29% Similarity=0.708 Sum_probs=21.6
Q ss_pred cCCCCCCCCEEEEEeec-ceEEcceeCCCCCccc
Q 032882 78 QCSQCKGNGINSVDHFN-GQFKAGGLCWLCRGKR 110 (131)
Q Consensus 78 ~C~~C~GsG~i~~~~~~-g~~q~~~~C~~C~G~G 110 (131)
.|..|.|.|.+....++ ..+. .+|+.|+|+.
T Consensus 640 ~c~~c~g~G~~~~~~~f~~~v~--~~c~~c~G~r 671 (842)
T 2vf7_A 640 RCEHCQGEGWVMVELLFLPSVY--APCPVCHGTR 671 (842)
T ss_dssp BCTTTTTCSEEEETTCSSSCEE--EECTTTTTCC
T ss_pred ccccccCCCccchhhhcCCccc--eecccccCcc
Confidence 58888999987655443 3444 7788887764
No 16
>1dl6_A Transcription factor II B (TFIIB); zinc ribbon, gene regulation; NMR {Homo sapiens} SCOP: g.41.3.1 PDB: 1rly_A 1ro4_A
Probab=33.15 E-value=19 Score=22.07 Aligned_cols=8 Identities=25% Similarity=1.219 Sum_probs=4.1
Q ss_pred ceEECCCC
Q 032882 110 REILCGNC 117 (131)
Q Consensus 110 G~iiC~~C 117 (131)
|.++|..|
T Consensus 29 ge~vC~~C 36 (58)
T 1dl6_A 29 GDMICPEC 36 (58)
T ss_dssp CCEECTTT
T ss_pred CeEEeCCC
Confidence 44445555
No 17
>2ygr_A Uvrabc system protein A; hydrolase, nucleotide excision repair; 3.40A {Mycobacterium tuberculosis} PDB: 3zqj_A
Probab=29.37 E-value=37 Score=31.86 Aligned_cols=31 Identities=26% Similarity=0.641 Sum_probs=22.9
Q ss_pred cCCCCCCCCEEEEEeec-ceEEcceeCCCCCccc
Q 032882 78 QCSQCKGNGINSVDHFN-GQFKAGGLCWLCRGKR 110 (131)
Q Consensus 78 ~C~~C~GsG~i~~~~~~-g~~q~~~~C~~C~G~G 110 (131)
+|..|.|.|.+....++ ..+. .+|..|.|..
T Consensus 773 rC~~C~g~G~~~~e~~fl~~v~--~~ce~c~G~r 804 (993)
T 2ygr_A 773 RCEACTGDGTIKIEMNFLPDVY--VPCEVCQGAR 804 (993)
T ss_dssp BCTTTTSSSEEEECCTTSCCEE--EECTTTTTCS
T ss_pred cccccccccceeehhhccccce--eeehhccccc
Confidence 69999999998766544 3445 7888888753
No 18
>2k0a_A PRE-mRNA-splicing factor RDS3; zinc finger, topological knot, mRNA processing, nucleus, spliceosome, RNA binding protein; NMR {Saccharomyces cerevisiae}
Probab=28.45 E-value=12 Score=26.56 Aligned_cols=44 Identities=20% Similarity=0.472 Sum_probs=25.2
Q ss_pred cceeCCCCCCCCcccCCCCCCCCEEEEEeec------ceEEcceeCCCCC-ccceEE
Q 032882 64 NSIICPDCDGNGAKQCSQCKGNGINSVDHFN------GQFKAGGLCWLCR-GKREIL 113 (131)
Q Consensus 64 r~v~C~~C~GsG~~~C~~C~GsG~i~~~~~~------g~~q~~~~C~~C~-G~G~ii 113 (131)
--..|+.|+| +|+-|+.-=+......+ +..+ ..|--|+ +.|..-
T Consensus 21 iG~lCekcdG----kC~iCDs~Vrp~~~VrICdeCs~G~~~--~rCIiCg~~~g~~d 71 (109)
T 2k0a_A 21 TGLLCEKCDG----KCPICDSYVRPKRKVRVCENCSFGKQA--KNCIICNLNVGVND 71 (109)
T ss_dssp ECEECGGGTT----CCTTTCCCCCCCEECEEEHHHHTSSTT--SBCTTTSSSBCCEE
T ss_pred hhhhhhhcCC----cccccCCccCCcceEEECCcCCCCCcC--CceEEcCCCCCccc
Confidence 3468999998 79999873322111111 3333 5666666 555543
No 19
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, transcription factor, DNA-binding, DNA-directed RNA polymerase; 4.30A {Saccharomyces cerevisiae}
Probab=26.62 E-value=26 Score=27.05 Aligned_cols=9 Identities=22% Similarity=1.047 Sum_probs=4.9
Q ss_pred cceEECCCC
Q 032882 109 KREILCGNC 117 (131)
Q Consensus 109 ~G~iiC~~C 117 (131)
+|.++|..|
T Consensus 40 rGE~VCsdC 48 (197)
T 3k1f_M 40 EGDVVCALC 48 (197)
T ss_dssp GTEEEETTT
T ss_pred CCEEEEcCC
Confidence 455556655
No 20
>3agx_A DNAJ homolog subfamily B member 1; chaperone; 1.85A {Homo sapiens} PDB: 3agy_A 3agz_A 2qld_A
Probab=24.41 E-value=18 Score=26.65 Aligned_cols=34 Identities=21% Similarity=0.222 Sum_probs=19.3
Q ss_pred eeEEeeecCccceeeecceeCCCCCCCCcccCCCCCCCCEEEE
Q 032882 48 SLKVKATDSNQSSTKTNSIICPDCDGNGAKQCSQCKGNGINSV 90 (131)
Q Consensus 48 ~~~~~~~~~~~~~~~~r~v~C~~C~GsG~~~C~~C~GsG~i~~ 90 (131)
.|++++.|+..+.++.-.+. ..|..|+|.|++..
T Consensus 8 ~l~islee~~~G~~k~i~i~---------~~c~~c~G~g~~~~ 41 (181)
T 3agx_A 8 DLRVSLEEIYSGCTKKMKIS---------HKRLNPDGKSIRNE 41 (181)
T ss_dssp EEEECHHHHHHCEEEEEEEE---------EEEECTTSSCEEEE
T ss_pred EEEEEHHHhcCCcEEEEEEe---------cccCCCCCceEEEE
Confidence 47777777777654433221 13566667776543
No 21
>4bbr_M Transcription initiation factor IIB; RNA polymerase, TFIIB; 3.40A {Saccharomyces cerevisiae} PDB: 3k7a_M 4bbs_M
Probab=24.38 E-value=30 Score=28.07 Aligned_cols=9 Identities=22% Similarity=1.047 Sum_probs=5.6
Q ss_pred cceEECCCC
Q 032882 109 KREILCGNC 117 (131)
Q Consensus 109 ~G~iiC~~C 117 (131)
+|.++|..|
T Consensus 40 ~G~~vC~~C 48 (345)
T 4bbr_M 40 EGDVVCALC 48 (345)
T ss_dssp GTEEEETTT
T ss_pred CCcEEeCCC
Confidence 455567777
No 22
>1qyp_A RNA polymerase II; transcription, RPB9, Zn ribbon, hyperthermophilic, extremophIle; NMR {Thermococcus celer} SCOP: g.41.3.1
Probab=23.70 E-value=89 Score=18.47 Aligned_cols=6 Identities=33% Similarity=0.628 Sum_probs=3.4
Q ss_pred eeCCCC
Q 032882 101 GLCWLC 106 (131)
Q Consensus 101 ~~C~~C 106 (131)
..|..|
T Consensus 44 y~C~~C 49 (57)
T 1qyp_A 44 YKCTKC 49 (57)
T ss_dssp EEESSS
T ss_pred EEcCCC
Confidence 456655
No 23
>2hf1_A Tetraacyldisaccharide-1-P 4-kinase; LPXK, lipid A biosynthes structural genomics, PSI-2, protein structure initiative; 1.90A {Chromobacterium violaceum} SCOP: b.171.1.1
Probab=23.56 E-value=41 Score=21.41 Aligned_cols=8 Identities=25% Similarity=0.688 Sum_probs=4.3
Q ss_pred ceEECCCC
Q 032882 110 REILCGNC 117 (131)
Q Consensus 110 G~iiC~~C 117 (131)
|..+|+.|
T Consensus 25 ~~LiC~~c 32 (68)
T 2hf1_A 25 DELICKGD 32 (68)
T ss_dssp TEEEETTT
T ss_pred CEEEcCCC
Confidence 44456655
No 24
>2jny_A Uncharacterized BCR; structure, CGR1, NESG, structural genomics, PSI-2, protein structure initiative; NMR {Corynebacterium glutamicum} SCOP: b.171.1.1
Probab=23.13 E-value=41 Score=21.39 Aligned_cols=8 Identities=0% Similarity=-0.018 Sum_probs=4.0
Q ss_pred ceEECCCC
Q 032882 110 REILCGNC 117 (131)
Q Consensus 110 G~iiC~~C 117 (131)
|..+|+.|
T Consensus 27 g~LvC~~c 34 (67)
T 2jny_A 27 QLLVNERL 34 (67)
T ss_dssp TEEEETTT
T ss_pred CEEEcCCC
Confidence 44445555
No 25
>2jr6_A UPF0434 protein NMA0874; solution, structural genomics, PSI, structure initiative, northeast structural genomics consort NESG; NMR {Neisseria meningitidis}
Probab=23.07 E-value=42 Score=21.37 Aligned_cols=8 Identities=13% Similarity=0.314 Sum_probs=4.1
Q ss_pred ceEECCCC
Q 032882 110 REILCGNC 117 (131)
Q Consensus 110 G~iiC~~C 117 (131)
|..+|+.|
T Consensus 25 ~~LiC~~c 32 (68)
T 2jr6_A 25 QELWSRQA 32 (68)
T ss_dssp TEEEETTT
T ss_pred CEEEcCCC
Confidence 44445555
No 26
>2jne_A Hypothetical protein YFGJ; zinc fingers, two zinc, structural genomics, PSI-2, protein structure initiative; NMR {Escherichia coli} SCOP: g.41.18.1
Probab=22.59 E-value=78 Score=21.99 Aligned_cols=43 Identities=26% Similarity=0.716 Sum_probs=25.5
Q ss_pred eeCCCCCCC----Ccc-cCCCCCCCCEEEEEeecceEEcceeCCCCCccceEE---------CCCCCC
Q 032882 66 IICPDCDGN----GAK-QCSQCKGNGINSVDHFNGQFKAGGLCWLCRGKREIL---------CGNCNG 119 (131)
Q Consensus 66 v~C~~C~Gs----G~~-~C~~C~GsG~i~~~~~~g~~q~~~~C~~C~G~G~ii---------C~~C~G 119 (131)
..|+.|+-. |.. .|..|+.. ++....||+|+-.=++. |..|+|
T Consensus 33 ~~CP~Cq~eL~~~g~~~hC~~C~~~-----------f~~~a~CPdC~q~LevLkACGAvdYFC~~chg 89 (101)
T 2jne_A 33 LHCPQCQHVLDQDNGHARCRSCGEF-----------IEMKALCPDCHQPLQVLKACGAVDYFCQHGHG 89 (101)
T ss_dssp CBCSSSCSBEEEETTEEEETTTCCE-----------EEEEEECTTTCSBCEEEEETTEEEEEETTTTE
T ss_pred ccCccCCCcceecCCEEECccccch-----------hhccccCcchhhHHHHHHHhcCcchhhccCCc
Confidence 578888643 222 57777762 11227788887664443 777765
No 27
>1tfi_A Transcriptional elongation factor SII; transcription regulation; NMR {Homo sapiens} SCOP: g.41.3.1
Probab=21.17 E-value=1.3e+02 Score=17.79 Aligned_cols=16 Identities=19% Similarity=0.459 Sum_probs=9.6
Q ss_pred cCCCCCCCCEEEEEee
Q 032882 78 QCSQCKGNGINSVDHF 93 (131)
Q Consensus 78 ~C~~C~GsG~i~~~~~ 93 (131)
.|+.|+.........|
T Consensus 11 ~Cp~Cg~~~a~f~q~Q 26 (50)
T 1tfi_A 11 TCGKCKKKNCTYTQVQ 26 (50)
T ss_dssp CCSSSCSSCEEEEEEC
T ss_pred CCCCCCCCEEEEEEec
Confidence 5666666666555444
No 28
>2jrp_A Putative cytoplasmic protein; two-zinc binding protein, structural genomics, PSI-2, protein structure initiative; NMR {Salmonella typhimurium LT2}
Probab=20.77 E-value=1.7e+02 Score=19.37 Aligned_cols=19 Identities=32% Similarity=0.929 Sum_probs=10.5
Q ss_pred eeCCCCCCC-----CcccCCCCCC
Q 032882 66 IICPDCDGN-----GAKQCSQCKG 84 (131)
Q Consensus 66 v~C~~C~Gs-----G~~~C~~C~G 84 (131)
..|+.|+.. +...|..|+.
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~~C~~ 26 (81)
T 2jrp_A 3 ITCPVCHHALERNGDTAHCETCAK 26 (81)
T ss_dssp CCCSSSCSCCEECSSEEECTTTCC
T ss_pred CCCCCCCCccccCCCceECccccc
Confidence 467777532 1225777765
No 29
>2pk7_A Uncharacterized protein; NESG, PLR1, putative tetraacyldisaccharide-1-P 4-kinase, Q4K structural genomics, PSI-2; 2.20A {Pseudomonas fluorescens} SCOP: b.171.1.1
Probab=20.39 E-value=48 Score=21.12 Aligned_cols=8 Identities=13% Similarity=0.372 Sum_probs=3.9
Q ss_pred ceEECCCC
Q 032882 110 REILCGNC 117 (131)
Q Consensus 110 G~iiC~~C 117 (131)
|..+|+.|
T Consensus 25 ~~LiC~~c 32 (69)
T 2pk7_A 25 TELISKGA 32 (69)
T ss_dssp SEEEETTT
T ss_pred CEEEcCCC
Confidence 44445555
Done!