Query 033968
Match_columns 107
No_of_seqs 115 out of 485
Neff 5.4
Searched_HMMs 29240
Date Mon Mar 25 13:54:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033968.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/033968hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2pa8_L DNA-directed RNA polyme 100.0 2.2E-38 7.5E-43 213.6 10.0 84 7-90 8-92 (92)
2 1xpp_A TA1416, DNA-directed RN 100.0 8.1E-38 2.8E-42 218.8 11.7 90 7-96 18-107 (115)
3 3h0g_K DNA-directed RNA polyme 100.0 6.5E-38 2.2E-42 221.4 8.6 97 6-102 24-121 (123)
4 1twf_K B13.6, DNA-directed RNA 100.0 3.4E-37 1.2E-41 216.8 9.6 89 6-94 25-116 (120)
5 2pa8_D DNA-directed RNA polyme 93.8 0.038 1.3E-06 41.9 3.1 26 8-33 9-34 (265)
6 1twf_C B44.5, DNA-directed RNA 93.6 0.16 5.5E-06 40.0 6.3 41 49-89 225-266 (318)
7 2pa8_D DNA-directed RNA polyme 90.8 0.35 1.2E-05 36.5 5.0 40 49-88 223-263 (265)
8 1twf_C B44.5, DNA-directed RNA 90.6 0.13 4.3E-06 40.6 2.4 28 7-34 13-40 (318)
9 1bdf_A RNA polymerase alpha su 90.5 0.11 3.8E-06 39.1 2.0 25 9-33 21-49 (235)
10 2a6h_A DNA-directed RNA polyme 90.2 0.36 1.2E-05 38.0 4.7 46 37-82 174-226 (315)
11 2a6h_A DNA-directed RNA polyme 90.0 0.13 4.4E-06 40.5 2.0 30 8-37 17-51 (315)
12 1bdf_A RNA polymerase alpha su 90.0 0.18 6.1E-06 38.0 2.7 46 37-82 180-232 (235)
13 3h0g_C DNA-directed RNA polyme 89.3 0.33 1.1E-05 38.0 3.9 40 48-87 225-265 (297)
14 3lu0_A DNA-directed RNA polyme 89.1 0.27 9.1E-06 39.0 3.2 47 36-82 179-232 (329)
15 3h0g_C DNA-directed RNA polyme 88.5 0.3 1E-05 38.2 3.2 30 7-36 12-42 (297)
16 3lu0_A DNA-directed RNA polyme 87.7 0.25 8.6E-06 39.2 2.2 34 8-41 20-58 (329)
17 3ba3_A Protein LP_0091, pyrido 60.0 8.9 0.0003 26.5 3.5 31 26-57 53-83 (145)
18 3m7n_D Probable exosome comple 50.5 41 0.0014 24.9 6.1 50 53-103 201-251 (258)
19 3mq9_A Bone marrow stromal ant 43.7 48 0.0016 25.9 5.8 36 60-95 367-412 (471)
20 2qn6_B Translation initiation 39.0 37 0.0013 21.8 3.8 39 39-80 44-83 (93)
21 1j5u_A Archease, possible chap 37.1 47 0.0016 22.7 4.2 35 40-78 12-47 (136)
22 3iot_A Maltose-binding protein 36.5 55 0.0019 25.0 5.0 38 60-97 353-392 (449)
23 2jsx_A Protein NAPD; TAT, proo 35.7 37 0.0013 21.8 3.3 35 24-61 19-53 (95)
24 3swy_A Cyclic nucleotide-gated 34.3 67 0.0023 18.3 5.1 31 67-97 3-33 (46)
25 3ezx_A MMCP 1, monomethylamine 29.9 39 0.0013 24.3 3.0 39 7-45 91-131 (215)
26 3v26_X ORF3, ORF95, probable s 27.9 1.1E+02 0.0037 19.4 4.6 34 53-86 60-93 (101)
27 1y80_A Predicted cobalamin bin 27.7 44 0.0015 23.3 2.9 39 8-46 88-128 (210)
28 3swf_A CGMP-gated cation chann 26.4 1.2E+02 0.0042 18.9 5.1 31 67-97 5-35 (74)
29 3n94_A Fusion protein of malto 25.6 1.2E+02 0.0042 23.2 5.3 37 60-96 355-392 (475)
30 3dhx_A Methionine import ATP-b 25.2 60 0.0021 20.7 3.0 37 11-47 66-102 (106)
31 3hbx_A GAD 1, glutamate decarb 23.9 2.6E+02 0.0089 21.8 9.1 69 9-80 373-443 (502)
32 3ljm_A Coil Ser L9C; de novo d 23.7 87 0.003 16.2 4.0 22 65-86 4-25 (31)
33 4dzo_A Mitotic spindle assembl 23.4 1.7E+02 0.0058 19.5 5.2 32 64-95 6-37 (123)
34 1jw3_A Conserved hypothetical 23.2 93 0.0032 21.1 3.8 31 44-78 7-37 (140)
35 2yqr_A KIAA0907 protein; struc 22.4 1.4E+02 0.0048 19.8 4.5 40 51-97 73-112 (119)
36 3tqm_A Ribosome-associated fac 21.8 1.5E+02 0.0051 18.3 4.6 32 53-84 60-91 (96)
37 2i2x_B MTAC, methyltransferase 21.6 77 0.0026 23.2 3.3 40 8-47 123-164 (258)
38 1nvp_D Transcription initiatio 21.3 1.6E+02 0.0053 19.5 4.5 30 62-91 9-45 (108)
39 3e98_A GAF domain of unknown f 21.3 1.4E+02 0.0048 22.0 4.7 36 62-97 65-100 (252)
40 3k6q_A Putative ligand binding 20.8 46 0.0016 23.3 1.8 33 56-88 73-105 (139)
41 2ns5_A Partitioning-defective 20.7 35 0.0012 21.9 1.1 45 20-72 22-72 (85)
42 1vq3_A Phosphoribosylformylgly 20.4 1.1E+02 0.0037 19.7 3.5 25 50-74 16-43 (94)
43 4aq4_A SN-glycerol-3-phosphate 20.1 82 0.0028 23.0 3.2 10 62-71 394-403 (419)
No 1
>2pa8_L DNA-directed RNA polymerase subunit L; ferredoxin-like Fe-S binding motif, platform for RNA polymer assembly, transferase; 1.76A {Sulfolobus solfataricus} PDB: 2pmz_L 3hkz_L 2waq_L 2wb1_L 2y0s_L
Probab=100.00 E-value=2.2e-38 Score=213.63 Aligned_cols=84 Identities=23% Similarity=0.396 Sum_probs=81.3
Q ss_pred CCCCeeEEEEecCCcchHHHHHHHHhcCCCeeeeeecCCCCCCCceeEEEEeCCC-CHHHHHHHHHHHHHHHHHHHHHHH
Q 033968 7 GDQSNATFSLTEEDHTLANAVRFTLNQDPRVTFCGYSIPHPSDARVNIRVQTTGD-PAREVLKDSCQELMLMCRHVRSTF 85 (107)
Q Consensus 7 ~~~n~~~~~i~~EDHTLgNlLr~~L~~~~~V~fAgY~vpHPle~~i~lrIqT~~~-~p~eal~~Al~~L~~~~~~l~~~f 85 (107)
+++|+++|+|.||||||||+||++|+++|+|.||||+||||++++++|||||+++ +|.+||++|+++|.+.|++++++|
T Consensus 8 k~~n~~~f~i~~EDHTLgN~Lr~~L~~~p~V~fagY~vpHPl~~~~~lrIqT~~~~~p~~al~~a~~~l~~~~~~~~~~f 87 (92)
T 2pa8_L 8 SESNYLELEIEGEDHTLGNLIAGTLRRISGVSFASYYQPHPLSDKIIVKILTDGSITPKDALLKAIENIRGMTSHYIDEI 87 (92)
T ss_dssp EETTEEEEEEETCCHHHHHHHHHHHHTSTTEEEEEEECSSTTSCCEEEEEEECSSSCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cCCCeEEEEEecCchhHHHHHHHHHhcCCCeeEEEeecCCCCCCceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5789999999999999999999999999999999999999999999999999988 999999999999999999999999
Q ss_pred HHHHH
Q 033968 86 AKAVD 90 (107)
Q Consensus 86 ~~a~~ 90 (107)
++|++
T Consensus 88 ~~~~k 92 (92)
T 2pa8_L 88 KGLTK 92 (92)
T ss_dssp HHHHC
T ss_pred HHHhC
Confidence 99863
No 2
>1xpp_A TA1416, DNA-directed RNA polymerase subunit L; structural genomics, protein structure initiative, MCSG; 1.60A {Thermoplasma acidophilum} SCOP: d.74.3.2
Probab=100.00 E-value=8.1e-38 Score=218.76 Aligned_cols=90 Identities=18% Similarity=0.302 Sum_probs=86.7
Q ss_pred CCCCeeEEEEecCCcchHHHHHHHHhcCCCeeeeeecCCCCCCCceeEEEEeCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 033968 7 GDQSNATFSLTEEDHTLANAVRFTLNQDPRVTFCGYSIPHPSDARVNIRVQTTGDPAREVLKDSCQELMLMCRHVRSTFA 86 (107)
Q Consensus 7 ~~~n~~~~~i~~EDHTLgNlLr~~L~~~~~V~fAgY~vpHPle~~i~lrIqT~~~~p~eal~~Al~~L~~~~~~l~~~f~ 86 (107)
+++|+++|+|.+|||||||+||++|++||+|.||||+|||||+++++|||||+|+.|.+||++|+++|.+.|++|++.|+
T Consensus 18 k~~n~~~f~i~~EDHTLgNlLr~~Llkdp~V~fAgY~vpHPle~~~~lrIqT~~~~p~eaL~~al~~L~~~~~~l~~~f~ 97 (115)
T 1xpp_A 18 KEKNSITVEMINYDNTLLRTLVEEILKDDQVDEARYYIKHPVIDNPQIYVRVKSGKPQSAIKRAVRKLSKLYEDLGTQFQ 97 (115)
T ss_dssp ECSSEEEEEEESCCHHHHHHHHHHHTTCTTEEEEEEECSSTTTSCCEEEEEESSSCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCEEEEEEeCCCchhHHHHHHHHhcCCCeEEEEeecCCCCCCccEEEEEeCCCChHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57999999999999999999999999999999999999999999999999999888999999999999999999999999
Q ss_pred HHHHHHHhhh
Q 033968 87 KAVDDFRTSE 96 (107)
Q Consensus 87 ~a~~~~~~~~ 96 (107)
+|+++|+.++
T Consensus 98 ~a~~~~~~~~ 107 (115)
T 1xpp_A 98 KEFQRYESDH 107 (115)
T ss_dssp HHHHHHHHHC
T ss_pred HHHHHhchhh
Confidence 9999997653
No 3
>3h0g_K DNA-directed RNA polymerase II subunit RPB11; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=100.00 E-value=6.5e-38 Score=221.40 Aligned_cols=97 Identities=31% Similarity=0.460 Sum_probs=90.6
Q ss_pred CCCCCeeEEEEecCCcchHHHHHHHHhcCCCeeeeeecCCCCCCCceeEEEEeCCC-CHHHHHHHHHHHHHHHHHHHHHH
Q 033968 6 FGDQSNATFSLTEEDHTLANAVRFTLNQDPRVTFCGYSIPHPSDARVNIRVQTTGD-PAREVLKDSCQELMLMCRHVRST 84 (107)
Q Consensus 6 ~~~~n~~~~~i~~EDHTLgNlLr~~L~~~~~V~fAgY~vpHPle~~i~lrIqT~~~-~p~eal~~Al~~L~~~~~~l~~~ 84 (107)
++.+|+++|+|.+|||||||+||++|+++|+|.||||+||||++++++|||||+|+ +|.+||++||++|++.|++|++.
T Consensus 24 tk~~n~~~f~i~~EDHTLgNlLr~~Llk~p~V~fAgY~vpHPle~~~~lrIqT~~~~~p~eaL~~al~~L~~~~~~l~~~ 103 (123)
T 3h0g_K 24 SKSPNAAVVTLEKEDHTLANMLANQLLSDERVLFAGYKVPHPLNHNFILRVQTVEDCSPKQVIVDAAKSLITHLEEIKVN 103 (123)
T ss_dssp SSSTTEEEEEEESCCSSHHHHHHHTGGGSTTCSCBCCBCSCTTSCEEEEEEECCSSSCSHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCceEEEEEeCCCcchHHHHHHHHhcCCCeeEeeecCCCCCCCceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 67899999999999999999999999999999999999999999999999999988 99999999999999999999999
Q ss_pred HHHHHHHHHhhhhhhhcc
Q 033968 85 FAKAVDDFRTSEKVQAMK 102 (107)
Q Consensus 85 f~~a~~~~~~~~~~~~~~ 102 (107)
|.++++.++...+...|+
T Consensus 104 F~~~~~~~~~~~~~~~~~ 121 (123)
T 3h0g_K 104 FMREWELKMISVEGVEME 121 (123)
T ss_dssp HHHHTTTTTSSSCCCC--
T ss_pred HHHHHHhccccccceeec
Confidence 999999988776654554
No 4
>1twf_K B13.6, DNA-directed RNA polymerase II 13.6 kDa polypepti; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: d.74.3.2 PDB: 1i3q_K 1i6h_K 1k83_K* 1nik_K 1nt9_K 1pqv_K 1r5u_K 1r9s_K* 1r9t_K* 1sfo_K* 1twa_K* 1twc_K* 1i50_K* 1twg_K* 1twh_K* 1wcm_K 1y1v_K 1y1w_K 1y1y_K 1y77_K* ...
Probab=100.00 E-value=3.4e-37 Score=216.77 Aligned_cols=89 Identities=27% Similarity=0.511 Sum_probs=83.6
Q ss_pred CCCCCeeEEEEecCCcchHHHHHHHHhcCCCeeeeeecCCCCCCCceeEEEEeCCC-CHHHHHHHHHHHHHHHHHHHHHH
Q 033968 6 FGDQSNATFSLTEEDHTLANAVRFTLNQDPRVTFCGYSIPHPSDARVNIRVQTTGD-PAREVLKDSCQELMLMCRHVRST 84 (107)
Q Consensus 6 ~~~~n~~~~~i~~EDHTLgNlLr~~L~~~~~V~fAgY~vpHPle~~i~lrIqT~~~-~p~eal~~Al~~L~~~~~~l~~~ 84 (107)
++++|+++|+|.||||||||+||++|+++|+|.||||+|||||+++++|||||+|+ +|.+||++||++|++.|++++++
T Consensus 25 ~k~~n~~~f~i~~EDHTLgNlLr~~Llk~p~V~fAgY~vpHPl~~~~~lrIqT~~~~~p~eaL~~a~~~L~~~~~~l~~~ 104 (120)
T 1twf_K 25 TKAPNAVVITFEKEDHTLGNLIRAELLNDRKVLFAAYKVEHPFFARFKLRIQTTEGYDPKDALKNACNSIINKLGALKTN 104 (120)
T ss_dssp SSSTTEEEEEEESCCHHHHHHHHHHHTTCTTEEEEEEECSCTTSCEEEEEEEECTTCCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cCCCCeEEEEEeCCCchHHHHHHHHHhhCCCeeEEeeecCCCCCCccEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 46789999999999999999999999999999999999999999999999999998 99999999999999999999999
Q ss_pred HHH--HHHHHHh
Q 033968 85 FAK--AVDDFRT 94 (107)
Q Consensus 85 f~~--a~~~~~~ 94 (107)
|.+ ++++|..
T Consensus 105 f~~e~~~~~~~~ 116 (120)
T 1twf_K 105 FETEWNLQTLAA 116 (120)
T ss_dssp HHHHTTTCCC--
T ss_pred HHHHHHHHhhhc
Confidence 999 7666554
No 5
>2pa8_D DNA-directed RNA polymerase subunit D; ferredoxin-like Fe-S binding motif, platform for RNA polymer assembly, transferase; 1.76A {Sulfolobus solfataricus} PDB: 2pmz_D 3hkz_D 2waq_D 2wb1_D 2y0s_D
Probab=93.83 E-value=0.038 Score=41.89 Aligned_cols=26 Identities=15% Similarity=0.142 Sum_probs=16.0
Q ss_pred CCCeeEEEEecCCcchHHHHHHHHhc
Q 033968 8 DQSNATFSLTEEDHTLANAVRFTLNQ 33 (107)
Q Consensus 8 ~~n~~~~~i~~EDHTLgNlLr~~L~~ 33 (107)
+++.+.|.+.|-|+||||+||-.|+.
T Consensus 9 ~~~~~~f~l~g~~~t~~NalRRills 34 (265)
T 2pa8_D 9 DDTRIDLVFEGYPLEFVNAIRRASML 34 (265)
T ss_dssp CSSEEEEEEESSCHHHHHHHHHHHHH
T ss_pred CCCEEEEEEeCCCHHHHHHHHHHHHH
Confidence 35556666666666666666655554
No 6
>1twf_C B44.5, DNA-directed RNA polymerase II 45 kDa polypeptide; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: d.74.3.1 d.181.1.1 PDB: 1i3q_C 1i6h_C 1k83_C* 1nik_C 1nt9_C 1pqv_C 1r5u_C 1r9s_C* 1r9t_C* 1sfo_C* 1twa_C* 1twc_C* 1i50_C* 1twg_C* 1twh_C* 1wcm_C 1y1v_C 1y1w_C 1y1y_C 1y77_C* ...
Probab=93.57 E-value=0.16 Score=40.02 Aligned_cols=41 Identities=12% Similarity=0.208 Sum_probs=36.7
Q ss_pred CCceeEEEEeCCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 033968 49 DARVNIRVQTTGD-PAREVLKDSCQELMLMCRHVRSTFAKAV 89 (107)
Q Consensus 49 e~~i~lrIqT~~~-~p~eal~~Al~~L~~~~~~l~~~f~~a~ 89 (107)
.+++.|.|.|+|. +|.+||.+|++-|++.|..|.+.+....
T Consensus 225 ~dkfif~VET~Gsi~Peeav~~A~kIL~~kl~~f~~~l~~~~ 266 (318)
T 1twf_C 225 ADTFYMNVESVGSIPVDQVVVRGIDTLQKKVASILLALTQMD 266 (318)
T ss_dssp CCCEEEEEEECSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred CCEEEEEEEecCCcCHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 4589999999999 9999999999999999999988876643
No 7
>2pa8_D DNA-directed RNA polymerase subunit D; ferredoxin-like Fe-S binding motif, platform for RNA polymer assembly, transferase; 1.76A {Sulfolobus solfataricus} PDB: 2pmz_D 3hkz_D 2waq_D 2wb1_D 2y0s_D
Probab=90.81 E-value=0.35 Score=36.53 Aligned_cols=40 Identities=5% Similarity=0.285 Sum_probs=35.2
Q ss_pred CCceeEEEEeCCC-CHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 033968 49 DARVNIRVQTTGD-PAREVLKDSCQELMLMCRHVRSTFAKA 88 (107)
Q Consensus 49 e~~i~lrIqT~~~-~p~eal~~Al~~L~~~~~~l~~~f~~a 88 (107)
.++..+.|.|+|. +|.+++..|++-|++.++.|.+.+...
T Consensus 223 ~d~~i~~VEt~Gsl~Pee~v~~A~~iL~~~~~~~~~~l~~~ 263 (265)
T 2pa8_D 223 EDKYILEIESVGSLKPERILLEAGKSIIRKIEELEKKLVEV 263 (265)
T ss_dssp EEEEEEEEEECSSSCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCeEEEEeccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3567888999999 999999999999999999999887654
No 8
>1twf_C B44.5, DNA-directed RNA polymerase II 45 kDa polypeptide; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: d.74.3.1 d.181.1.1 PDB: 1i3q_C 1i6h_C 1k83_C* 1nik_C 1nt9_C 1pqv_C 1r5u_C 1r9s_C* 1r9t_C* 1sfo_C* 1twa_C* 1twc_C* 1i50_C* 1twg_C* 1twh_C* 1wcm_C 1y1v_C 1y1w_C 1y1y_C 1y77_C* ...
Probab=90.57 E-value=0.13 Score=40.64 Aligned_cols=28 Identities=25% Similarity=0.428 Sum_probs=24.6
Q ss_pred CCCCeeEEEEecCCcchHHHHHHHHhcC
Q 033968 7 GDQSNATFSLTEEDHTLANAVRFTLNQD 34 (107)
Q Consensus 7 ~~~n~~~~~i~~EDHTLgNlLr~~L~~~ 34 (107)
.+++.+.|.+.|-|+||||+||-.|+..
T Consensus 13 ~~~~~~kF~leG~~~tlaNALRRiLLSe 40 (318)
T 1twf_C 13 ASKDNVDFILSNVDLAMANSLRRVMIAE 40 (318)
T ss_dssp CCSSEECCEEBSSCHHHHHHHHHHHHHC
T ss_pred ecCCEEEEEEEccChhHHHHHHHHHHHc
Confidence 4678899999999999999999888764
No 9
>1bdf_A RNA polymerase alpha subunit; nucleotidyltransferase, assemble; 2.50A {Escherichia coli} SCOP: d.74.3.1 d.181.1.1
Probab=90.52 E-value=0.11 Score=39.14 Aligned_cols=25 Identities=36% Similarity=0.405 Sum_probs=12.7
Q ss_pred CCeeEEEEe----cCCcchHHHHHHHHhc
Q 033968 9 QSNATFSLT----EEDHTLANAVRFTLNQ 33 (107)
Q Consensus 9 ~n~~~~~i~----~EDHTLgNlLr~~L~~ 33 (107)
++.+.|.+. |-++||||+||-.|+.
T Consensus 21 ~~~~~F~l~Ple~G~~~tlgNaLRRiLLs 49 (235)
T 1bdf_A 21 STHAKVTLEPLERGFGHTLGNALRAILLS 49 (235)
T ss_dssp SSEEEEEEEEEETTHHHHHHHHHHHHHTT
T ss_pred CCEEEEEEEecCCCCchHHHHHHHHHHHh
Confidence 344555553 5555555555544444
No 10
>2a6h_A DNA-directed RNA polymerase alpha chain; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} SCOP: d.74.3.1 d.181.1.1 PDB: 1smy_A* 1zyr_A* 1iw7_A* 2a69_A* 2a6e_A 2a68_A* 2be5_A* 2cw0_A 2o5i_A 2o5j_A* 2ppb_A* 3aoh_A* 3aoi_A* 3dxj_A* 3eql_A* 1i6v_A* 1ynj_A* 1l9z_A 1l9u_A* 1ynn_A* ...
Probab=90.20 E-value=0.36 Score=37.95 Aligned_cols=46 Identities=15% Similarity=0.217 Sum_probs=36.9
Q ss_pred eeeeeecCC------CCCCCceeEEEEeCCC-CHHHHHHHHHHHHHHHHHHHH
Q 033968 37 VTFCGYSIP------HPSDARVNIRVQTTGD-PAREVLKDSCQELMLMCRHVR 82 (107)
Q Consensus 37 V~fAgY~vp------HPle~~i~lrIqT~~~-~p~eal~~Al~~L~~~~~~l~ 82 (107)
|.-|.|.+. -.-.+++.|.|.|+|. +|.+||.+|++-|.+.|..|.
T Consensus 174 v~~v~y~ve~~rv~~~~~~dkli~eIeT~Gsi~P~eal~~A~~iL~~~l~~f~ 226 (315)
T 2a6h_A 174 VRRVAFQVEDTRLGQRTDLDKLTLRIWTDGSVTPLEALNQAVEILREHLTYFS 226 (315)
T ss_dssp EEEEEEEEEECCBTTBCCCEEEEEEEEECSSSCHHHHHHHHHHHHHHHHHTTC
T ss_pred ceeEEEEeeeeeecccccccEEEEEEEEcCCCCHHHHHHHHHHHHHHHHHHHh
Confidence 445566543 1234689999999999 999999999999999999884
No 11
>2a6h_A DNA-directed RNA polymerase alpha chain; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} SCOP: d.74.3.1 d.181.1.1 PDB: 1smy_A* 1zyr_A* 1iw7_A* 2a69_A* 2a6e_A 2a68_A* 2be5_A* 2cw0_A 2o5i_A 2o5j_A* 2ppb_A* 3aoh_A* 3aoi_A* 3dxj_A* 3eql_A* 1i6v_A* 1ynj_A* 1l9z_A 1l9u_A* 1ynn_A* ...
Probab=90.04 E-value=0.13 Score=40.54 Aligned_cols=30 Identities=27% Similarity=0.292 Sum_probs=25.0
Q ss_pred CCCeeEEEE----ecCCcchHHHHHHHHhcC-CCe
Q 033968 8 DQSNATFSL----TEEDHTLANAVRFTLNQD-PRV 37 (107)
Q Consensus 8 ~~n~~~~~i----~~EDHTLgNlLr~~L~~~-~~V 37 (107)
+++.+.|.+ .|-++||||+||-.|+.. |+.
T Consensus 17 ~~~~~~F~l~Ple~G~~~TlgNaLRRiLLsevpg~ 51 (315)
T 2a6h_A 17 GREYGEFVLEPLERGFGVTLGNPLRRILLSSIPGT 51 (315)
T ss_dssp TTTEEEEEEEEECTTCHHHHHHHHHHHHHHTCEEE
T ss_pred cCCEEEEEEEccCCCchhHHHHHHHHHHHhcCCce
Confidence 477899999 499999999999888875 543
No 12
>1bdf_A RNA polymerase alpha subunit; nucleotidyltransferase, assemble; 2.50A {Escherichia coli} SCOP: d.74.3.1 d.181.1.1
Probab=90.02 E-value=0.18 Score=38.03 Aligned_cols=46 Identities=15% Similarity=0.216 Sum_probs=36.4
Q ss_pred eeeeeecCCCC------CCCceeEEEEeCCC-CHHHHHHHHHHHHHHHHHHHH
Q 033968 37 VTFCGYSIPHP------SDARVNIRVQTTGD-PAREVLKDSCQELMLMCRHVR 82 (107)
Q Consensus 37 V~fAgY~vpHP------le~~i~lrIqT~~~-~p~eal~~Al~~L~~~~~~l~ 82 (107)
|.-+.|.++-. -.+++.|.|.|+|. +|.+||.+|++-|.+.|..|.
T Consensus 180 v~~v~y~ve~~~v~~~~~~d~li~eIeT~Gsi~P~eal~~A~~iL~~~~~~f~ 232 (235)
T 1bdf_A 180 VERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFV 232 (235)
T ss_dssp EEEEEEECCBCCCSSCSSEEEEEEEEEECSSSCHHHHHHHHHHHHHHHGGGGC
T ss_pred EEEEEEEccCccccccccCcEEEEEEEecCCCCHHHHHHHHHHHHHHHHHHHh
Confidence 44466776422 23579999999999 999999999999999887664
No 13
>3h0g_C DNA-directed RNA polymerase II subunit RPB3; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=89.29 E-value=0.33 Score=37.98 Aligned_cols=40 Identities=15% Similarity=0.252 Sum_probs=36.2
Q ss_pred CCCceeEEEEeCCC-CHHHHHHHHHHHHHHHHHHHHHHHHH
Q 033968 48 SDARVNIRVQTTGD-PAREVLKDSCQELMLMCRHVRSTFAK 87 (107)
Q Consensus 48 le~~i~lrIqT~~~-~p~eal~~Al~~L~~~~~~l~~~f~~ 87 (107)
-.+++.|.|.|+|. +|.+++.+|++-|+..++.|.+.+++
T Consensus 225 ~~dkfif~VET~Gsl~p~eiv~~A~~iL~~kl~~f~~~L~~ 265 (297)
T 3h0g_C 225 EPRRFYMDVESVGSIPPNEIMVQGLRILQEKLAVLVRDLDE 265 (297)
T ss_dssp CCCCEEEEEEBCSSSCTTTTTHHHHHHHHHHHHHHHHHHHC
T ss_pred cCCEEEEEEEEcCCCCHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 35789999999999 99999999999999999999888764
No 14
>3lu0_A DNA-directed RNA polymerase subunit alpha; E. coli RNA polymerase, nucleotidyltransferase, transcription, transferase; 11.20A {Escherichia coli} PDB: 3iyd_A
Probab=89.08 E-value=0.27 Score=39.05 Aligned_cols=47 Identities=15% Similarity=0.218 Sum_probs=37.4
Q ss_pred CeeeeeecCC-----CCC-CCceeEEEEeCCC-CHHHHHHHHHHHHHHHHHHHH
Q 033968 36 RVTFCGYSIP-----HPS-DARVNIRVQTTGD-PAREVLKDSCQELMLMCRHVR 82 (107)
Q Consensus 36 ~V~fAgY~vp-----HPl-e~~i~lrIqT~~~-~p~eal~~Al~~L~~~~~~l~ 82 (107)
=|.-+.|.|. -.. ..+..|.|.|+|. +|.+||..|++-|++.+.-|.
T Consensus 179 PV~~Vny~Ve~~rvgq~td~dkL~leI~TdGsi~P~eAl~~Aa~iL~~~l~~f~ 232 (329)
T 3lu0_A 179 PVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFV 232 (329)
T ss_dssp CEEEEEEEEEEECCSSCSCEEEEEEEEEECSSSCHHHHHHHHHHHHHHHTTTSS
T ss_pred ceeeEEEEEeccccCCCcccceEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHh
Confidence 3556777654 333 4689999999999 999999999999999877654
No 15
>3h0g_C DNA-directed RNA polymerase II subunit RPB3; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=88.53 E-value=0.3 Score=38.21 Aligned_cols=30 Identities=23% Similarity=0.368 Sum_probs=26.0
Q ss_pred CCCCeeEEEEecCCcchHHHHHHHHhcC-CC
Q 033968 7 GDQSNATFSLTEEDHTLANAVRFTLNQD-PR 36 (107)
Q Consensus 7 ~~~n~~~~~i~~EDHTLgNlLr~~L~~~-~~ 36 (107)
.+++.+.|.+.|-|.||||+||-.|+.. |.
T Consensus 12 ~~~~~~~F~l~g~~~tiaNALRRiLLSeVPt 42 (297)
T 3h0g_C 12 ISKNSVDFVLTNTSLAVANSLRRVVLAEIPT 42 (297)
T ss_dssp BCSSEEEEEECSCCHHHHHHHHHHHHSSCCE
T ss_pred ccCCEEEEEEECCChhHHHHHHHHHHHcCcc
Confidence 4678999999999999999999888874 53
No 16
>3lu0_A DNA-directed RNA polymerase subunit alpha; E. coli RNA polymerase, nucleotidyltransferase, transcription, transferase; 11.20A {Escherichia coli} PDB: 3iyd_A
Probab=87.69 E-value=0.25 Score=39.21 Aligned_cols=34 Identities=29% Similarity=0.358 Sum_probs=27.6
Q ss_pred CCCeeEEEEe----cCCcchHHHHHHHHhcC-CCeeeee
Q 033968 8 DQSNATFSLT----EEDHTLANAVRFTLNQD-PRVTFCG 41 (107)
Q Consensus 8 ~~n~~~~~i~----~EDHTLgNlLr~~L~~~-~~V~fAg 41 (107)
+++.+.|.+. |-++||||+||-.|+.. |+.-.-+
T Consensus 20 ~~~~~kF~l~PlerG~g~TlgNaLRRvLLssvpg~AIt~ 58 (329)
T 3lu0_A 20 SSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTE 58 (329)
T ss_dssp TTSEEEEEECCCCTTCHHHHHHHHHHHTTTSSCEEEEEE
T ss_pred CCCEEEEEEEecCCCChhHHHHHHHHHHHhcCCceEEEE
Confidence 5788999998 99999999999988884 6543333
No 17
>3ba3_A Protein LP_0091, pyridoxamine 5'-phosphate oxidase-like protein; NP_783940.1, structural genomics; HET: MSE; 1.55A {Lactobacillus plantarum WCFS1}
Probab=59.98 E-value=8.9 Score=26.52 Aligned_cols=31 Identities=16% Similarity=0.235 Sum_probs=23.0
Q ss_pred HHHHHHhcCCCeeeeeecCCCCCCCceeEEEE
Q 033968 26 AVRFTLNQDPRVTFCGYSIPHPSDARVNIRVQ 57 (107)
Q Consensus 26 lLr~~L~~~~~V~fAgY~vpHPle~~i~lrIq 57 (107)
---.+|.+||+|.|++|.-.-+- +..+||++
T Consensus 53 ~k~~ql~~Np~V~i~~~~~d~~~-~~~~IRi~ 83 (145)
T 3ba3_A 53 PALKVYDQNPDIAFITIPNDGTA-GNPYLRAQ 83 (145)
T ss_dssp THHHHHTTCCEEEEEEEECTTCT-TCCEEEEE
T ss_pred HHHHHHHhCCCEEEEEECCCCCc-cceEEEEE
Confidence 34567899999999999744433 46778886
No 18
>3m7n_D Probable exosome complex exonuclease 1; exosome, RNA, exonuclease, hydrolase, nuclease, hydrolase-RN; 2.40A {Archaeoglobus fulgidus} PDB: 3m85_D 2ba0_F 2ba1_E
Probab=50.46 E-value=41 Score=24.91 Aligned_cols=50 Identities=10% Similarity=-0.039 Sum_probs=36.9
Q ss_pred eEEEEeCCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhccc
Q 033968 53 NIRVQTTGD-PAREVLKDSCQELMLMCRHVRSTFAKAVDDFRTSEKVQAMKI 103 (107)
Q Consensus 53 ~lrIqT~~~-~p~eal~~Al~~L~~~~~~l~~~f~~a~~~~~~~~~~~~~~~ 103 (107)
.+-||..+. ++ +-|.++++--.+.|.++.+.+++++++.-...+.++++|
T Consensus 201 I~~lq~~g~~~~-~~l~~~l~~A~~~~~~i~~~~~~~l~~~~~~~~~~~~~~ 251 (258)
T 3m7n_D 201 IALLQMDGRMTR-DEVKQAIELAKKGALQIYEMQREAILRRYIEVGEEMDEI 251 (258)
T ss_dssp EEEEEEEEEECH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred EEEEEecCCcCH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhHh
Confidence 344676666 55 778889999999999999988888887666655556665
No 19
>3mq9_A Bone marrow stromal antigen 2 fused to maltose-BI periplasmic protein; HIV, antiviral protein; 2.80A {Escherichia coli}
Probab=43.66 E-value=48 Score=25.89 Aligned_cols=36 Identities=17% Similarity=0.302 Sum_probs=26.9
Q ss_pred CC-CHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHhh
Q 033968 60 GD-PAREVLKDSCQELMLMCRHVRST---------FAKAVDDFRTS 95 (107)
Q Consensus 60 ~~-~p~eal~~Al~~L~~~~~~l~~~---------f~~a~~~~~~~ 95 (107)
|. +|.+||+++.+.+...++....+ +++.+.+++.+
T Consensus 367 G~~t~eeal~~~~~~i~~~l~~~~~~~e~~~~~~~~~~~~~~~~~~ 412 (471)
T 3mq9_A 367 GRQTVDEALKDAQTRITAARDGLRAVMEARNVTHLLQQELTEAQKG 412 (471)
T ss_dssp SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHhhHHHHHhhhHHHHHHHHHHHHhhh
Confidence 55 99999999999888888877766 66666555443
No 20
>2qn6_B Translation initiation factor 2 alpha subunit; initiation of translation, GTP-binding, nucleotide-binding, protein biosynthesis; HET: GDP; 2.15A {Sulfolobus solfataricus} SCOP: d.58.51.1 PDB: 2qmu_B* 3qsy_B*
Probab=38.97 E-value=37 Score=21.80 Aligned_cols=39 Identities=26% Similarity=0.336 Sum_probs=26.2
Q ss_pred eeeecCCCCCCCceeEEEEeCCC-CHHHHHHHHHHHHHHHHHH
Q 033968 39 FCGYSIPHPSDARVNIRVQTTGD-PAREVLKDSCQELMLMCRH 80 (107)
Q Consensus 39 fAgY~vpHPle~~i~lrIqT~~~-~p~eal~~Al~~L~~~~~~ 80 (107)
.-=|.|-=| .-.|++++.+. ...++|++|++.+.+.++.
T Consensus 44 vkI~~vgaP---~Y~i~~~~~D~k~ge~~L~~ai~~i~~~i~~ 83 (93)
T 2qn6_B 44 IKIYTIGAP---RYRVDVVGTNPKEASEALNQIISNLIKIGKE 83 (93)
T ss_dssp EEEEESSTT---EEEEEEEESCHHHHHHHHHHHHHHHHHHHHH
T ss_pred EEEEEEcCC---eEEEEEEecCHHHHHHHHHHHHHHHHHHHHH
Confidence 444555544 55667777655 7888888888888776554
No 21
>1j5u_A Archease, possible chaperone; structural genomics, joint center for structural G JCSG, protein structure initiative, PSI; 2.00A {Thermotoga maritima} SCOP: d.208.1.1
Probab=37.13 E-value=47 Score=22.72 Aligned_cols=35 Identities=23% Similarity=0.291 Sum_probs=27.0
Q ss_pred eeec-CCCCCCCceeEEEEeCCCCHHHHHHHHHHHHHHHH
Q 033968 40 CGYS-IPHPSDARVNIRVQTTGDPAREVLKDSCQELMLMC 78 (107)
Q Consensus 40 AgY~-vpHPle~~i~lrIqT~~~~p~eal~~Al~~L~~~~ 78 (107)
-||+ .+|+-+ +.|...|.+..+++.+|+..+.+.+
T Consensus 12 ~~~e~ldHTAD----v~i~a~G~tleEaFe~aa~Am~~~m 47 (136)
T 1j5u_A 12 HMRKPIEHTAD----IAYEISGNSYEELLEEARNILLEEE 47 (136)
T ss_dssp CCCCCCCCSCC----EEEEEEESSHHHHHHHHHHHHHHHH
T ss_pred cceeecCCccc----EEEEEEECCHHHHHHHHHHHHHHhc
Confidence 4666 677766 5666667799999999998887765
No 22
>3iot_A Maltose-binding protein, huntingtin fusion protei; HTT-EX1, HD, sugar transport, transport, apoptos disease mutation, nucleus; 3.50A {Escherichia coli k-12} PDB: 3io6_A 3io4_A 3ior_A 3iou_A 3iov_A 3iow_A
Probab=36.46 E-value=55 Score=25.00 Aligned_cols=38 Identities=11% Similarity=0.145 Sum_probs=27.3
Q ss_pred CC-CHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhhhh
Q 033968 60 GD-PAREVLKDSCQELMLMC-RHVRSTFAKAVDDFRTSEK 97 (107)
Q Consensus 60 ~~-~p~eal~~Al~~L~~~~-~~l~~~f~~a~~~~~~~~~ 97 (107)
|. +|.+||.++.+.+.+.. ....+++...++.++..++
T Consensus 353 G~~~~eeal~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~ 392 (449)
T 3iot_A 353 GRQTVDAALAAAQTNAAAMATLEKLMKAFESLKSFQQQQQ 392 (449)
T ss_dssp TSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC----
T ss_pred CCCCHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhccccc
Confidence 55 99999999999998877 5556778788887765543
No 23
>2jsx_A Protein NAPD; TAT, proofreading, cytoplasm, chaperone; NMR {Escherichia coli K12} PDB: 2pq4_A
Probab=35.73 E-value=37 Score=21.76 Aligned_cols=35 Identities=14% Similarity=0.208 Sum_probs=26.1
Q ss_pred HHHHHHHHhcCCCeeeeeecCCCCCCCceeEEEEeCCC
Q 033968 24 ANAVRFTLNQDPRVTFCGYSIPHPSDARVNIRVQTTGD 61 (107)
Q Consensus 24 gNlLr~~L~~~~~V~fAgY~vpHPle~~i~lrIqT~~~ 61 (107)
..-++..|.+.|+|+..+-.-+ .+++.++|.+.+.
T Consensus 19 ~~~V~~~L~~ipgvEi~~~~~~---~GkiVV~iEa~~~ 53 (95)
T 2jsx_A 19 ISDISTQLNAFPGCEVAVSDAP---SGQLIVVVEAEDS 53 (95)
T ss_dssp HHHHHHHHTTSTTEEEEEEETT---TTEEEEEEEESSH
T ss_pred HHHHHHHHHCCCCeEEEEecCC---CCCEEEEEEeCCH
Confidence 5678889999999987653221 4589999998654
No 24
>3swy_A Cyclic nucleotide-gated cation channel alpha-3; coiled-coil, assembly domain, transport protein; 1.90A {Homo sapiens}
Probab=34.28 E-value=67 Score=18.34 Aligned_cols=31 Identities=13% Similarity=0.365 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 033968 67 LKDSCQELMLMCRHVRSTFAKAVDDFRTSEK 97 (107)
Q Consensus 67 l~~Al~~L~~~~~~l~~~f~~a~~~~~~~~~ 97 (107)
+++-++.|.+.++.+...|.+-+..|.+.+.
T Consensus 3 lEekv~~Le~~ld~LqTr~ArLlae~~ssq~ 33 (46)
T 3swy_A 3 LEEKVEQLGSSLDTLQTRFARLLAEYNATQM 33 (46)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5677888889999999999998888888776
No 25
>3ezx_A MMCP 1, monomethylamine corrinoid protein 1; N terminal all helical bundle C terminal rossmann fold, cobalt, metal-binding; HET: HCB; 2.56A {Methanosarcina barkeri}
Probab=29.91 E-value=39 Score=24.30 Aligned_cols=39 Identities=13% Similarity=0.092 Sum_probs=28.0
Q ss_pred CCCCeeEEEEecCCcchHHHHHHHHhcCCC--eeeeeecCC
Q 033968 7 GDQSNATFSLTEEDHTLANAVRFTLNQDPR--VTFCGYSIP 45 (107)
Q Consensus 7 ~~~n~~~~~i~~EDHTLgNlLr~~L~~~~~--V~fAgY~vp 45 (107)
..+.-+..++.+|-|.||-.+...+++..+ |.+-|-.+|
T Consensus 91 ~~~~vll~~v~gd~HdiG~~iv~~~l~~~G~~Vi~LG~~vp 131 (215)
T 3ezx_A 91 EAGLAITFVAEGDIHDIGHRLVTTMLGANGFQIVDLGVDVL 131 (215)
T ss_dssp -CCEEEEEECTTCCCCHHHHHHHHHHHHTSCEEEECCSSCC
T ss_pred CCCeEEEEeCCCChhHHHHHHHHHHHHHCCCeEEEcCCCCC
Confidence 345556778899999999988888888764 444555454
No 26
>3v26_X ORF3, ORF95, probable sigma(54) modulation protein; ribosome hibernation factor, YHBH, protein E, stress respons stationary phase; 3.10A {Escherichia coli} PDB: 3v28_X 2rql_A
Probab=27.85 E-value=1.1e+02 Score=19.37 Aligned_cols=34 Identities=9% Similarity=0.148 Sum_probs=26.7
Q ss_pred eEEEEeCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 033968 53 NIRVQTTGDPAREVLKDSCQELMLMCRHVRSTFA 86 (107)
Q Consensus 53 ~lrIqT~~~~p~eal~~Al~~L~~~~~~l~~~f~ 86 (107)
.|++.-.+.+...|+..|++.|...+...++++.
T Consensus 60 ~l~ae~~~~d~yaAID~a~dkLerQLrK~K~k~~ 93 (101)
T 3v26_X 60 EIHASAEGQDMYAAIDGLIDKLARQLTKHKDKLK 93 (101)
T ss_dssp CEEEEECCSSSSHHHHHHHHHHHHHHHHHHHHHH
T ss_pred eEEEEEecCCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4777766668999999999998888877777664
No 27
>1y80_A Predicted cobalamin binding protein; corrinoid, factor IIIM, methyl transferase, structural genomics, PSI, protein structure initiative; HET: B1M; 1.70A {Moorella thermoacetica}
Probab=27.71 E-value=44 Score=23.33 Aligned_cols=39 Identities=10% Similarity=0.007 Sum_probs=27.6
Q ss_pred CCCeeEEEEecCCcchHHHHHHHHhcCC--CeeeeeecCCC
Q 033968 8 DQSNATFSLTEEDHTLANAVRFTLNQDP--RVTFCGYSIPH 46 (107)
Q Consensus 8 ~~n~~~~~i~~EDHTLgNlLr~~L~~~~--~V~fAgY~vpH 46 (107)
.+..+..+..+|-|++|-.+-..+++.. +|.+-|..+|.
T Consensus 88 ~~~vll~~~~gd~H~iG~~~va~~l~~~G~~v~~LG~~vp~ 128 (210)
T 1y80_A 88 VGKIVLGTVKGDLHDIGKNLVAMMLESGGFTVYNLGVDIEP 128 (210)
T ss_dssp CCEEEEEEBTTCCCCHHHHHHHHHHHHTTCEEEECCSSBCH
T ss_pred CCEEEEEeCCCcccHHHHHHHHHHHHHCCCEEEECCCCCCH
Confidence 3456778889999999977777777765 45556665543
No 28
>3swf_A CGMP-gated cation channel alpha-1; coiled-coil, assembly domain, transport protein; 2.14A {Bos taurus}
Probab=26.37 E-value=1.2e+02 Score=18.93 Aligned_cols=31 Identities=10% Similarity=0.350 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 033968 67 LKDSCQELMLMCRHVRSTFAKAVDDFRTSEK 97 (107)
Q Consensus 67 l~~Al~~L~~~~~~l~~~f~~a~~~~~~~~~ 97 (107)
+++-++.|.+.++.|..+|.+-+..|.+.+.
T Consensus 5 lEEKv~~LE~sld~LQTrfARLLaEy~ssQ~ 35 (74)
T 3swf_A 5 LEEKVTRMESSVDLLQTRFARILAEYESMQQ 35 (74)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6677788888888888888888888877765
No 29
>3n94_A Fusion protein of maltose-binding periplasmic Pro pituitary adenylate cyclase 1 receptor-short...; G-protein coupled receptor; HET: MAL; 1.80A {Escherichia coli} PDB: 3ehs_A* 3ehu_A* 3eht_A* 3n93_A* 3n95_A* 3n96_A*
Probab=25.59 E-value=1.2e+02 Score=23.20 Aligned_cols=37 Identities=16% Similarity=0.215 Sum_probs=29.0
Q ss_pred CC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 033968 60 GD-PAREVLKDSCQELMLMCRHVRSTFAKAVDDFRTSE 96 (107)
Q Consensus 60 ~~-~p~eal~~Al~~L~~~~~~l~~~f~~a~~~~~~~~ 96 (107)
|. +|.+||+++.+.+.+.+..++++-++.++..+...
T Consensus 355 G~~t~eeal~~~~~~~~~~l~~l~~e~~~C~~~~~~~~ 392 (475)
T 3n94_A 355 GRQTVDEALKDAQTNAAAEFAIFKKEQAMCLEKIQRAN 392 (475)
T ss_dssp TSSCHHHHHHHHHHHHHHSHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 55 99999999999999888888887777766655543
No 30
>3dhx_A Methionine import ATP-binding protein METN; methionine uptake, regulation, amino-acid transport, ATP-BIN hydrolase, inner membrane, membrane; 2.10A {Escherichia coli} SCOP: d.58.18.13
Probab=25.23 E-value=60 Score=20.65 Aligned_cols=37 Identities=14% Similarity=0.241 Sum_probs=29.8
Q ss_pred eeEEEEecCCcchHHHHHHHHhcCCCeeeeeecCCCC
Q 033968 11 NATFSLTEEDHTLANAVRFTLNQDPRVTFCGYSIPHP 47 (107)
Q Consensus 11 ~~~~~i~~EDHTLgNlLr~~L~~~~~V~fAgY~vpHP 47 (107)
...+.+.|++--+..++.+.-.+.=.|+..||-..|-
T Consensus 66 ~L~v~l~G~~~~~~~ai~~L~~~~v~vEvl~~~~~~~ 102 (106)
T 3dhx_A 66 IMLTEMHGTQQDTQAAIAWLQEHHVKVEVLGYVLEHH 102 (106)
T ss_dssp EEEEEEESCHHHHHHHHHHHHHTTCEEEEEEEEEC--
T ss_pred EEEEEEeCCHHHHHHHHHHHHHCCCEEEEeeeeeecc
Confidence 3567888888888899998888888999999998874
No 31
>3hbx_A GAD 1, glutamate decarboxylase 1; calmodulin-binding, lyase, pyridoxal phosphate; HET: LLP; 2.67A {Arabidopsis thaliana}
Probab=23.89 E-value=2.6e+02 Score=21.82 Aligned_cols=69 Identities=17% Similarity=0.193 Sum_probs=38.2
Q ss_pred CCeeEEEEecCC-cchHHHHHHHHhcCCCeeeeeecCCCCCCCceeEEEEeCCC-CHHHHHHHHHHHHHHHHHH
Q 033968 9 QSNATFSLTEED-HTLANAVRFTLNQDPRVTFCGYSIPHPSDARVNIRVQTTGD-PAREVLKDSCQELMLMCRH 80 (107)
Q Consensus 9 ~n~~~~~i~~ED-HTLgNlLr~~L~~~~~V~fAgY~vpHPle~~i~lrIqT~~~-~p~eal~~Al~~L~~~~~~ 80 (107)
-+-+.|.+.+.. .+.. -|...|. ..++.+.+|..|--+...-.|||-+... +. +-+...+++|.+.++.
T Consensus 373 ~~~v~f~~~~~~~~~~~-~l~~~L~-~~Gi~v~~~~~p~~~~~~~~lRisv~~~~t~-edid~li~~L~~~l~~ 443 (502)
T 3hbx_A 373 VPLVAFSLKDSSCHTEF-EISDMLR-RYGWIVPAYTMPPNAQHITVLRVVIREDFSR-TLAERLVIDIEKVMRE 443 (502)
T ss_dssp SSEEEEEESSCSSCCHH-HHHHHHH-TTTCBCCEEECCTTCTTCEEEEEECCTTCCH-HHHHHHHHHHHHHHHH
T ss_pred ceEEEEEecCCCcCCHH-HHHHHHH-hCCcEEeeccCCcccCCceEEEEEeCCCCCH-HHHHHHHHHHHHHHHH
Confidence 345667766532 2222 3444444 4577777787665456667899998766 44 4444444444443333
No 32
>3ljm_A Coil Ser L9C; de novo design, three stranded coiled coil, APO, de novo Pro; 1.36A {Synthetic} PDB: 2jgo_A 1cos_A 3h5g_A 3h5f_A 3pbj_A 2x6p_C 1coi_A
Probab=23.71 E-value=87 Score=16.23 Aligned_cols=22 Identities=18% Similarity=0.348 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 033968 65 EVLKDSCQELMLMCRHVRSTFA 86 (107)
Q Consensus 65 eal~~Al~~L~~~~~~l~~~f~ 86 (107)
++|++-|..|.+.+..+++.++
T Consensus 4 ealekkcaalesklqalekkle 25 (31)
T 3ljm_A 4 EALEKKCAALESKLQALEKKLE 25 (31)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 6778888888877777776654
No 33
>4dzo_A Mitotic spindle assembly checkpoint protein MAD1; homodimer, kinetochore, mitosis, spindle checkpoint protein, nucleus, cell cycle; HET: MSE; 1.76A {Homo sapiens}
Probab=23.39 E-value=1.7e+02 Score=19.52 Aligned_cols=32 Identities=19% Similarity=0.380 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 033968 64 REVLKDSCQELMLMCRHVRSTFAKAVDDFRTS 95 (107)
Q Consensus 64 ~eal~~Al~~L~~~~~~l~~~f~~a~~~~~~~ 95 (107)
+..|+.-+..+.....-|++-|.+...+|+.-
T Consensus 6 ~~~l~~qi~~~ekr~~RLKevF~~ks~eFRea 37 (123)
T 4dzo_A 6 VAELKKQVESAELKNQRLKEVFQTKIQEFRKA 37 (123)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45677777777777888888888888877754
No 34
>1jw3_A Conserved hypothetical protein MTH1598; structural genomics, protein structure initiative, OCSP, NESG; NMR {Methanothermobacterthermautotrophicus} SCOP: d.208.1.1
Probab=23.22 E-value=93 Score=21.06 Aligned_cols=31 Identities=13% Similarity=0.203 Sum_probs=18.4
Q ss_pred CCCCCCCceeEEEEeCCCCHHHHHHHHHHHHHHHH
Q 033968 44 IPHPSDARVNIRVQTTGDPAREVLKDSCQELMLMC 78 (107)
Q Consensus 44 vpHPle~~i~lrIqT~~~~p~eal~~Al~~L~~~~ 78 (107)
++|+-. +.|...|.+..+++.+|+..+.+.+
T Consensus 7 ldHTAD----v~i~a~G~tlee~F~~aa~am~~~m 37 (140)
T 1jw3_A 7 FDVTAD----AGFWAYGHDLEEVFENAALAMFEVM 37 (140)
T ss_dssp CCCSSE----EEEEEECSSSHHHHHHHHHHHHHHH
T ss_pred cCCCcc----EEEEEEECCHHHHHHHHHHHHHHHh
Confidence 456433 4455556677777777776665543
No 35
>2yqr_A KIAA0907 protein; structure genomics, KH domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=22.38 E-value=1.4e+02 Score=19.76 Aligned_cols=40 Identities=13% Similarity=0.051 Sum_probs=22.5
Q ss_pred ceeEEEEeCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 033968 51 RVNIRVQTTGDPAREVLKDSCQELMLMCRHVRSTFAKAVDDFRTSEK 97 (107)
Q Consensus 51 ~i~lrIqT~~~~p~eal~~Al~~L~~~~~~l~~~f~~a~~~~~~~~~ 97 (107)
...+.|.. .++ +++.+|...+. .|........+.|+.+++
T Consensus 73 ~l~V~I~a--~~~-e~i~~A~~~Ie----~Ll~~v~~~~~~~~~q~~ 112 (119)
T 2yqr_A 73 PMYIYISH--PKP-EGLAAAKKLCE----NLLQTVHAEYSRFVNQIN 112 (119)
T ss_dssp BCEEEEEE--SSH-HHHHHHHHHHH----HHHHHHHHHHHHHHHHHS
T ss_pred CcEEEEEe--CCH-HHHHHHHHHHH----HHhhchHHHHHHHHHhhC
Confidence 44566664 344 55555555444 445555666666766655
No 36
>3tqm_A Ribosome-associated factor Y; protein synthesis, protein binding; 2.45A {Coxiella burnetii}
Probab=21.77 E-value=1.5e+02 Score=18.25 Aligned_cols=32 Identities=13% Similarity=0.109 Sum_probs=22.9
Q ss_pred eEEEEeCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 033968 53 NIRVQTTGDPAREVLKDSCQELMLMCRHVRST 84 (107)
Q Consensus 53 ~lrIqT~~~~p~eal~~Al~~L~~~~~~l~~~ 84 (107)
.|++...+.+...|+..|++.|...+...++.
T Consensus 60 ~l~a~~~~~d~y~Aid~a~dklerqL~k~k~k 91 (96)
T 3tqm_A 60 TINAQAESDDMYKTVDLLMHKLETQLSKYKAK 91 (96)
T ss_dssp EEEEEECCSCHHHHHHHHHHHHHHHHHHHHTC
T ss_pred EEEEEEecCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 46666555688899888888887766655544
No 37
>2i2x_B MTAC, methyltransferase 1; TIM barrel and helix bundle (MTAB), rossman fold and helix B (MTAC); HET: B13; 2.50A {Methanosarcina barkeri}
Probab=21.57 E-value=77 Score=23.15 Aligned_cols=40 Identities=13% Similarity=0.152 Sum_probs=30.9
Q ss_pred CCCeeEEEEecCCcchHHHHHHHHhcCC--CeeeeeecCCCC
Q 033968 8 DQSNATFSLTEEDHTLANAVRFTLNQDP--RVTFCGYSIPHP 47 (107)
Q Consensus 8 ~~n~~~~~i~~EDHTLgNlLr~~L~~~~--~V~fAgY~vpHP 47 (107)
.+..+..+..++-|++|-.+-..+++.. +|.+-|..+|..
T Consensus 123 ~~~vlla~~~gd~HdiG~~iva~~L~~~G~~Vi~LG~~vp~e 164 (258)
T 2i2x_B 123 KGTVVCHVAEGDVHDIGKNIVTALLRANGYNVVDLGRDVPAE 164 (258)
T ss_dssp SCEEEEEECTTCCCCHHHHHHHHHHHHTTCEEEEEEEECCSH
T ss_pred CCeEEEEeCCCCccHHHHHHHHHHHHHCCCEEEECCCCCCHH
Confidence 3456778889999999998888888776 466788877644
No 38
>1nvp_D Transcription initiation factor IIA gamma chain; transcription regulation, DNA, complex, transcription/DNA complex; 2.10A {Homo sapiens} SCOP: a.32.1.1 b.56.1.1
Probab=21.34 E-value=1.6e+02 Score=19.52 Aligned_cols=30 Identities=27% Similarity=0.388 Sum_probs=22.1
Q ss_pred CHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHH
Q 033968 62 PAREVLKDSCQELML-------MCRHVRSTFAKAVDD 91 (107)
Q Consensus 62 ~p~eal~~Al~~L~~-------~~~~l~~~f~~a~~~ 91 (107)
+.=.+|.++|+++++ ....+..+|++++.+
T Consensus 9 tiG~aL~dtLdEli~~~~Isp~la~kVL~~FDksi~~ 45 (108)
T 1nvp_D 9 TLGNSLQESLDELIQSQQITPQLALQVLLQFDKAINA 45 (108)
T ss_dssp HHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHH
Confidence 344688888888886 566777788877765
No 39
>3e98_A GAF domain of unknown function; structural genomics, joint center for structural genomics, JCSG, protein structure initiative, PSI-2; HET: MSE; 2.43A {Pseudomonas aeruginosa}
Probab=21.26 E-value=1.4e+02 Score=22.01 Aligned_cols=36 Identities=14% Similarity=0.174 Sum_probs=27.2
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 033968 62 PAREVLKDSCQELMLMCRHVRSTFAKAVDDFRTSEK 97 (107)
Q Consensus 62 ~p~eal~~Al~~L~~~~~~l~~~f~~a~~~~~~~~~ 97 (107)
..+..++..+..|++....+++++..-+...+.+..
T Consensus 65 ~aVSL~erQ~~~LR~r~~~Le~~L~~Li~~A~~Ne~ 100 (252)
T 3e98_A 65 DAVSLVERQVRLLRERNIEMRHRLSQLMDVARENDR 100 (252)
T ss_dssp --CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 556788888899999999999888887776666554
No 40
>3k6q_A Putative ligand binding protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE; 1.80A {Syntrophomonas wolfei subsp}
Probab=20.78 E-value=46 Score=23.32 Aligned_cols=33 Identities=15% Similarity=0.346 Sum_probs=26.9
Q ss_pred EEeCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 033968 56 VQTTGDPAREVLKDSCQELMLMCRHVRSTFAKA 88 (107)
Q Consensus 56 IqT~~~~p~eal~~Al~~L~~~~~~l~~~f~~a 88 (107)
|-+++.+-.+|+.+-+++|++.+++..+.|+-=
T Consensus 73 i~~~g~T~eeA~~~li~~l~eYAedY~n~~~~~ 105 (139)
T 3k6q_A 73 LVVSGESEQEVIQKLAEDLLEYAQDYMNDFKLF 105 (139)
T ss_dssp CEEEESSHHHHHHHHHHHHHHHHHHHHHTHHHH
T ss_pred eEeeCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445566899999999999999999998886543
No 41
>2ns5_A Partitioning-defective 3 homolog; cell polarity, N-terminal domain, PB1 domain, asymmetric membrane localization, signaling protein; NMR {Rattus norvegicus}
Probab=20.72 E-value=35 Score=21.95 Aligned_cols=45 Identities=16% Similarity=0.263 Sum_probs=30.1
Q ss_pred CcchHHHHHHHHhcCCCeeeeeecCCCCCCCceeEEEE---e-CCC--CHHHHHHHHHH
Q 033968 20 DHTLANAVRFTLNQDPRVTFCGYSIPHPSDARVNIRVQ---T-TGD--PAREVLKDSCQ 72 (107)
Q Consensus 20 DHTLgNlLr~~L~~~~~V~fAgY~vpHPle~~i~lrIq---T-~~~--~p~eal~~Al~ 72 (107)
++|.+.|.+..+.+ |+.-+|..+...++|+ + .|+ +|-+.|.+.++
T Consensus 22 ~~tV~~L~~~A~~R--------Y~K~~~k~~~~~v~V~~l~~~~ggiLD~DD~l~dVld 72 (85)
T 2ns5_A 22 RMKVFSLIQQAVTR--------YRKAVAKDPNYWIQVHRLEHGDGGILDLDDILCDVAD 72 (85)
T ss_dssp CCCHHHHHHHHHHH--------HHHHTTCCTTSCEEEEEEECSSSCEECTTSCHHHHSC
T ss_pred cccHHHHHHHHHHH--------HHHhcCCCCCcEEEEEEEEeCCCcEeCcccchhhhcc
Confidence 45999999888776 5555665454445554 6 444 88888877664
No 42
>1vq3_A Phosphoribosylformylglycinamidine synthase, PURS; TM1244, PURS SUB 6.3.5.3), structural genomics, joint center for structural JCSG; 1.90A {Thermotoga maritima} SCOP: d.284.1.1 PDB: 3d54_B*
Probab=20.44 E-value=1.1e+02 Score=19.67 Aligned_cols=25 Identities=24% Similarity=0.294 Sum_probs=18.4
Q ss_pred CceeEEEEeCCC--CHH-HHHHHHHHHH
Q 033968 50 ARVNIRVQTTGD--PAR-EVLKDSCQEL 74 (107)
Q Consensus 50 ~~i~lrIqT~~~--~p~-eal~~Al~~L 74 (107)
.+..+.|.-+.+ ||. ++++.|+.+|
T Consensus 16 ~~~~V~V~lKpgVlDPqG~aV~~aL~~L 43 (94)
T 1vq3_A 16 FKFAIDVQYRSNVRDPRGETIERVLREE 43 (94)
T ss_dssp EEEEEEEEECTTSCCHHHHHHHHHHHHT
T ss_pred EEEEEEEEECCCCcCcHHHHHHHHHHHc
Confidence 356677777777 887 8888888665
No 43
>4aq4_A SN-glycerol-3-phosphate-binding periplasmic prote; diester-binding protein; HET: G3P; 1.80A {Escherichia coli}
Probab=20.12 E-value=82 Score=23.03 Aligned_cols=10 Identities=10% Similarity=0.312 Sum_probs=4.3
Q ss_pred CHHHHHHHHH
Q 033968 62 PAREVLKDSC 71 (107)
Q Consensus 62 ~p~eal~~Al 71 (107)
+|.+||+++.
T Consensus 394 t~e~al~~~~ 403 (419)
T 4aq4_A 394 TPQQALDTAV 403 (419)
T ss_dssp CHHHHHHHHH
T ss_pred CHHHHHHHHH
Confidence 5544444333
Done!