Query 046720
Match_columns 455
No_of_seqs 213 out of 1821
Neff 9.8
Searched_HMMs 29240
Date Mon Mar 25 06:05:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/046720.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/046720hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2ayd_A WRKY transcription fact 97.0 0.004 1.4E-07 43.6 7.6 57 38-113 16-73 (76)
2 1wj2_A Probable WRKY transcrip 96.7 0.0023 8E-08 45.0 5.1 57 38-113 19-76 (78)
3 2rpr_A Flywch-type zinc finger 95.7 0.026 8.7E-07 41.4 6.3 49 38-114 26-74 (87)
4 3kks_A Integrase, IN; beta-str 81.3 5.1 0.00018 31.7 7.6 66 234-309 3-68 (152)
5 1cxq_A Avian sarcoma virus int 63.1 27 0.00092 27.9 7.8 70 234-308 12-81 (162)
6 3hph_A Integrase, IN; protein- 61.1 18 0.00063 30.7 6.7 66 234-309 61-126 (219)
7 1c0m_A Protein (integrase); HI 56.7 32 0.0011 29.7 7.6 70 234-308 11-80 (238)
8 3hot_A Transposable element ma 56.4 22 0.00076 32.6 6.8 56 246-304 186-252 (345)
9 1je8_A Nitrate/nitrite respons 55.0 11 0.00038 26.5 3.5 74 108-194 4-77 (82)
10 1bco_A MUA domain II, bacterio 52.4 25 0.00085 32.2 6.4 71 233-306 16-94 (327)
11 3l3u_A POL polyprotein; DNA in 49.2 45 0.0015 26.4 6.9 63 234-306 10-72 (163)
12 2nrr_A Uvrabc system protein C 48.6 24 0.00083 28.4 4.8 23 293-315 78-100 (159)
13 2lju_A Putative oxidoreductase 47.8 17 0.00057 27.3 3.4 29 15-47 60-88 (108)
14 3u5c_N S27A, YS15, 40S ribosom 47.7 14 0.00047 29.3 3.1 44 127-170 27-71 (151)
15 2xzm_O RPS13E; ribosome, trans 46.2 15 0.00051 29.2 3.1 37 130-166 33-69 (153)
16 2jya_A AGR_C_3324P, uncharacte 44.8 7.2 0.00025 29.1 1.1 29 16-48 53-81 (106)
17 1x9b_A Hypothetical membrane p 42.2 15 0.00052 22.7 2.0 44 345-389 8-51 (53)
18 2nrt_A Uvrabc system protein C 38.5 38 0.0013 29.0 4.8 23 293-315 83-105 (220)
19 2l69_A Rossmann 2X3 fold prote 38.4 21 0.00072 25.5 2.6 30 19-48 6-35 (134)
20 3j20_Q 30S ribosomal protein S 37.3 32 0.0011 27.5 3.8 40 127-166 27-67 (158)
21 2x78_A Integrase; viral protei 34.2 1E+02 0.0035 25.2 7.0 69 234-308 14-83 (200)
22 1tqz_A Necap1; endocytosis, st 34.1 67 0.0023 24.9 5.0 88 199-290 39-130 (133)
23 2bw3_A Transposase; DNA recomb 32.1 1.3E+02 0.0046 29.3 8.5 66 264-333 132-201 (534)
24 1c6v_A Protein (SIV integrase) 31.5 1.5E+02 0.005 23.0 7.3 62 234-305 10-71 (164)
25 3c65_A Uvrabc system protein C 30.1 44 0.0015 28.8 3.8 22 293-314 81-102 (226)
26 1fme_A FSD-EY peptide; beta-BE 30.0 33 0.0011 17.7 1.8 21 15-35 6-26 (28)
27 3f2k_A Histone-lysine N-methyl 29.6 1.6E+02 0.0055 25.0 7.5 62 243-307 65-136 (226)
28 3av9_A Integrase, IN; protein- 27.7 1.4E+02 0.0049 24.0 6.7 65 234-308 30-94 (183)
29 2kw0_A CCMH protein; oxidoredu 25.8 27 0.00092 25.1 1.4 36 124-159 37-72 (90)
30 3dom_A RNA polymerase II trans 25.3 72 0.0025 23.8 3.7 39 20-68 56-94 (108)
31 2hl7_A Cytochrome C-type bioge 24.6 30 0.001 24.6 1.5 36 124-159 40-75 (84)
32 2fcj_A Small toprim domain pro 24.4 86 0.0029 23.9 4.1 39 283-322 41-82 (119)
33 1ex4_A Integrase; SH3-like dom 24.0 2.1E+02 0.007 24.3 7.3 65 234-308 10-74 (239)
34 2job_A Antilipopolysaccharide 23.7 14 0.00048 27.0 -0.4 32 384-417 50-81 (102)
35 3ulq_B Transcriptional regulat 22.7 70 0.0024 22.8 3.2 58 125-193 27-84 (90)
36 2qh9_A UPF0215 protein AF_1433 21.8 1.5E+02 0.005 24.5 5.5 67 234-304 8-74 (184)
37 3dgp_A RNA polymerase II trans 21.8 1E+02 0.0035 21.6 3.7 39 20-68 28-66 (80)
No 1
>2ayd_A WRKY transcription factor 1; beta strands, zinc finger; 1.60A {Arabidopsis thaliana}
Probab=96.95 E-value=0.004 Score=43.63 Aligned_cols=57 Identities=25% Similarity=0.485 Sum_probs=44.0
Q ss_pred cCeEEEEeceecCCCCcEEEEEEEecCCCCcccccccccccccccccCCccEEEEEEcc-CCcEEEEEEecCCCCCC
Q 046720 38 VGFSVRINSSRKSHRGEIVRKEYVCSKEGATTKEVVEKKRRCSKVREGCKAKLAVVKSK-SGTYVVSVFEEDHNHPL 113 (455)
Q Consensus 38 ~gf~i~~~~s~~~~~~~~~~~~~~C~r~g~~~~~~~~~~r~~~s~~~gCpa~i~~~~~~-~~~w~v~~~~~~HNH~~ 113 (455)
=||.+|+--.+..++...-+-+|.|+.. |||++=.+.+.. ++...++.+..+|||++
T Consensus 16 DGy~WRKYGQK~ikgs~~PRsYYrCt~~-------------------gC~a~K~Ver~~~d~~~~~~tY~G~H~H~~ 73 (76)
T 2ayd_A 16 DGYRWRKYGQKSVKGSPYPRSYYRCSSP-------------------GCPVKKHVERSSHDTKLLITTYEGKHDHDM 73 (76)
T ss_dssp CSSCEEEEEEECCTTCSSCEEEEEECST-------------------TCCCEEEEEECSSSTTEEEEEEESCCSSCC
T ss_pred CCchhhhCcccccCCCCCceeEeEcCCC-------------------CCCceeeEEEECCCCCEEEEEEccCcCCCC
Confidence 4777777666655544455678899853 599999998886 77888888999999986
No 2
>1wj2_A Probable WRKY transcription factor 4; DNA-binding domain, zinc-binding, structural genomics; NMR {Arabidopsis thaliana} SCOP: g.79.1.1 PDB: 2lex_A*
Probab=96.74 E-value=0.0023 Score=45.01 Aligned_cols=57 Identities=26% Similarity=0.469 Sum_probs=42.7
Q ss_pred cCeEEEEeceecCCCCcEEEEEEEecCCCCcccccccccccccccccCCccEEEEEEcc-CCcEEEEEEecCCCCCC
Q 046720 38 VGFSVRINSSRKSHRGEIVRKEYVCSKEGATTKEVVEKKRRCSKVREGCKAKLAVVKSK-SGTYVVSVFEEDHNHPL 113 (455)
Q Consensus 38 ~gf~i~~~~s~~~~~~~~~~~~~~C~r~g~~~~~~~~~~r~~~s~~~gCpa~i~~~~~~-~~~w~v~~~~~~HNH~~ 113 (455)
=||.+|+.-.+..++....+-+|.|+.. |||++=.+.+.. ++...++.+..+|||++
T Consensus 19 DGy~WRKYGQK~ikgs~~PRsYYrCt~~-------------------gC~a~K~Ver~~~d~~~~~~tY~G~H~H~~ 76 (78)
T 1wj2_A 19 DGYRWRKYGQKVVKGNPYPRSYYKCTTP-------------------GCGVRKHVERAATDPKAVVTTYEGKHNHDL 76 (78)
T ss_dssp SSSCBCCCEEECCTTCSSCEEEEEEECS-------------------SCEEEEEEEEETTTTSEEEEEEESCCSSCC
T ss_pred CCchhhhCcccccCCCcCeeEEeecCcC-------------------CCCcEeeEEEEcCCCCEEEEEEeeEcCCCC
Confidence 4666666555544444455778999863 599999998876 77788888999999986
No 3
>2rpr_A Flywch-type zinc finger-containing protein 1; flywch domain, alternative splicing, DNA-binding, metal- binding, nucleus, metal binding protein; NMR {Homo sapiens}
Probab=95.68 E-value=0.026 Score=41.36 Aligned_cols=49 Identities=14% Similarity=0.321 Sum_probs=30.5
Q ss_pred cCeEEEEeceecCCCCcEEEEEEEecCCCCcccccccccccccccccCCccEEEEEEccCCcEEEEEEecCCCCCCC
Q 046720 38 VGFSVRINSSRKSHRGEIVRKEYVCSKEGATTKEVVEKKRRCSKVREGCKAKLAVVKSKSGTYVVSVFEEDHNHPLT 114 (455)
Q Consensus 38 ~gf~i~~~~s~~~~~~~~~~~~~~C~r~g~~~~~~~~~~r~~~s~~~gCpa~i~~~~~~~~~w~v~~~~~~HNH~~~ 114 (455)
.||.+...+.... ..++.|.+... .+|+|++.... +. +. ....|||+|.
T Consensus 26 ~Gy~Y~~~~~~~~------~~yWrC~~~~~----------------~kCrARi~T~~---~~--~~-~~~~HnH~p~ 74 (87)
T 2rpr_A 26 ESFLYRKEKAAGE------KVYWMCRDQAR----------------LGCRSRAITQG---HR--IM-VMRSHCHQPD 74 (87)
T ss_dssp TTEEEEEEEECSS------CEEEEEGGGTT----------------SCCCCEEEEET---TE--EE-ECSCCSSCCC
T ss_pred CCEEEEeeecCCC------cEEEEecCCCC----------------CCCCEEEEEcC---CC--EE-CCCCcCCCCc
Confidence 3565555444332 45788886432 26999988863 22 32 5678999875
No 4
>3kks_A Integrase, IN; beta-strands flanked by alpha-helices, DNA binding protein; 2.20A {Bovine immunodeficiency virus} PDB: 3kkr_A
Probab=81.30 E-value=5.1 Score=31.67 Aligned_cols=66 Identities=15% Similarity=0.134 Sum_probs=46.5
Q ss_pred cEEEEeeeeccccCCceeeeEEEEeeCCcceeehhhhccCcchhhHHHHHHHHHHHCCCCCCceEecCcCHHHHHH
Q 046720 234 DVVVFDTTYNTNKYGMIFAPFIGVNNHGQTTVFACSFLSDETTESFVWLFEQFKKAMPGDLPKMIITDQDPAITKA 309 (455)
Q Consensus 234 ~v~~~D~t~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~p~~ii~D~~~~~~~a 309 (455)
+++.+|.|+..+ .+.++.+|..-+.. +++. +.+++.+....+|..+....| |..|.+|......+.
T Consensus 3 ~~w~~D~t~~~~-----~y~~~~iD~~sr~~-~~~~-~~~~~~~~~~~~l~~~~~~~g---p~~i~sDnG~~f~s~ 68 (152)
T 3kks_A 3 HLWQMDNTHWNK-----TIIWVAVETNSGLV-EAQV-IPEETALQVALCILQLIQRYT---VLHLHSDNGPCFTAH 68 (152)
T ss_dssp CEEEEEEEEETT-----EEEEEEEETTTCCE-EEEE-ESSSCHHHHHHHHHHHHHHSC---CSEEEECSCHHHHSH
T ss_pred cEEEEeeeeeCC-----EEEEEEEEcCCCcE-EEEE-eCCcCHHHHHHHHHHHHHHhC---CcEEecCCchHhhHH
Confidence 678899998732 25666777765544 4444 457777777777777766665 999999999877543
No 5
>1cxq_A Avian sarcoma virus integrase; mixed beta-sheet surrounded by alpha-helices, transferase; HET: EPE; 1.02A {Avian sarcoma virus} SCOP: c.55.3.2 PDB: 1cxu_A* 1czb_A* 1cz9_A* 1asu_A* 1asw_A* 1asv_A 1a5v_A* 1a5w_A* 1a5x_A* 1vsf_A* 1vse_A* 3o4n_A* 1vsm_A 3o4q_A* 1vsd_A* 1vsh_A* 1vsi_A* 1vsj_A* 1vsk_A 1vsl_A
Probab=63.15 E-value=27 Score=27.88 Aligned_cols=70 Identities=14% Similarity=0.043 Sum_probs=46.5
Q ss_pred cEEEEeeeeccccCCceeeeEEEEeeCCcceeehhhhccCcchhhHHHHHHHHHHHCCCCCCceEecCcCHHHHH
Q 046720 234 DVVVFDTTYNTNKYGMIFAPFIGVNNHGQTTVFACSFLSDETTESFVWLFEQFKKAMPGDLPKMIITDQDPAITK 308 (455)
Q Consensus 234 ~v~~~D~t~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~p~~ii~D~~~~~~~ 308 (455)
+++.+|-|+..... +..+.++.+|..-+ .++++.+- +.+.+....+|..+....| .|..|.+|......+
T Consensus 12 ~~~~~D~~~~~~~~-g~~yl~~~iD~~Sr-~i~~~~~~-~~~~~~v~~~l~~~~~~~g--~p~~i~sDnG~~f~s 81 (162)
T 1cxq_A 12 QIWQTDFTLEPRMA-PRSWLAVTVDTASS-AIVVTQHG-RVTSVAAQHHWATAIAVLG--RPKAIKTDNGSCFTS 81 (162)
T ss_dssp CEEEEEEEECGGGT-TSCEEEEEEETTTC-CEEEEEES-SCCHHHHHHHHHHHHHHHC--CCSEEECCSCHHHHS
T ss_pred CEEEeeeeecccCC-CCEEEEEEEEcCCC-eEEEEECC-CccHHHHHHHHHHHHHHHC--CCeEEEeCCchhhhh
Confidence 67889988765433 33556666777654 44555554 6777776666666655544 478999999987654
No 6
>3hph_A Integrase, IN; protein-protein complex, tetramer, DNA integration, endonucl magnesium, metal-binding, multifunctional enzyme; 2.64A {Maedi visna virus} PDB: 3hpg_A
Probab=61.08 E-value=18 Score=30.66 Aligned_cols=66 Identities=21% Similarity=0.246 Sum_probs=43.6
Q ss_pred cEEEEeeeeccccCCceeeeEEEEeeCCcceeehhhhccCcchhhHHHHHHHHHHHCCCCCCceEecCcCHHHHHH
Q 046720 234 DVVVFDTTYNTNKYGMIFAPFIGVNNHGQTTVFACSFLSDETTESFVWLFEQFKKAMPGDLPKMIITDQDPAITKA 309 (455)
Q Consensus 234 ~v~~~D~t~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~p~~ii~D~~~~~~~a 309 (455)
+++.+|-|+..++ +.++.+|..-+.. .++. +.+++......+|..+....| |..|.||......+.
T Consensus 61 ~~w~~D~t~~~~~-----y~~~~iD~~Sr~~-~~~~-~~~~~~~~~~~~l~~~~~~~g---p~~i~sDnG~~F~s~ 126 (219)
T 3hph_A 61 DHWQVDYTHYEDK-----IILVWVETNSGLI-YAER-VKGETGQEFRVQTMKWYAMFA---PKSLQSDNGPAFVAE 126 (219)
T ss_dssp CEEEEEEEEETTE-----EEEEEEETTTCCE-EEEE-ESCCCHHHHHHHHHHHHHHHC---CCEEEECCCHHHHSH
T ss_pred ceEEEEEecCCCE-----EEEEEEeCCCCcE-EEEE-eCCCCHHHHHHHHHHHHHHhC---CcEEEeCCCchhhhH
Confidence 5677888765432 5666777766555 4443 556666666666665555545 899999999887543
No 7
>1c0m_A Protein (integrase); HIV, X-RAY crystallography, protein structure, transferase; 2.53A {Rous sarcoma virus} SCOP: b.34.7.1 c.55.3.2 PDB: 1c1a_A
Probab=56.69 E-value=32 Score=29.67 Aligned_cols=70 Identities=14% Similarity=0.064 Sum_probs=48.3
Q ss_pred cEEEEeeeeccccCCceeeeEEEEeeCCcceeehhhhccCcchhhHHHHHHHHHHHCCCCCCceEecCcCHHHHH
Q 046720 234 DVVVFDTTYNTNKYGMIFAPFIGVNNHGQTTVFACSFLSDETTESFVWLFEQFKKAMPGDLPKMIITDQDPAITK 308 (455)
Q Consensus 234 ~v~~~D~t~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~p~~ii~D~~~~~~~ 308 (455)
.++.+|-|+.....+ -.+.++.+|..- ..++++.+- +++.+....+|.......+ .|.+|.||......+
T Consensus 11 ~~w~~D~~~~~~~~g-~~yl~~~iD~~S-r~i~~~~~~-~~~~~~v~~~l~~~~~~~g--~p~~i~sDnG~~f~s 80 (238)
T 1c0m_A 11 QIWQTDFTLEPRMAP-RSWLAVTVDTAS-SAIVVTQHG-RVTSVAVQHHWATAIAVLG--RPKAIKTDNGSCFTS 80 (238)
T ss_dssp SEEEEEEEECGGGCS-SCEEEEEEETTT-CCEEEEEES-SCCHHHHHHHHHHHHHHHC--CCSEEEECSCHHHHS
T ss_pred CEEEEeeccccccCC-CEEEEEEEECCC-CCEEEEEcc-CCCHHHHHHHHHHHHHHhC--CCcEEEECCCCcccc
Confidence 678899988654333 355666666654 445566655 7888877777777666555 488999999887654
No 8
>3hot_A Transposable element mariner, complete CDS; protein-DNA complex, synaptic complex, transposase, inverted DNA, DNA binding protein-DNA complex; HET: 5IU; 3.25A {Drosophila mauritiana} PDB: 3hos_A*
Probab=56.36 E-value=22 Score=32.65 Aligned_cols=56 Identities=14% Similarity=0.297 Sum_probs=35.8
Q ss_pred cCCceeeeEEEEeeCCcceeehhhhcc---CcchhhHHHHHHHHHHHC----CC----CCCceEecCcCH
Q 046720 246 KYGMIFAPFIGVNNHGQTTVFACSFLS---DETTESFVWLFEQFKKAM----PG----DLPKMIITDQDP 304 (455)
Q Consensus 246 ~~~~~l~~~~~~~~~~~~~~~~~~~~~---~e~~~~~~~~l~~~~~~~----~~----~~p~~ii~D~~~ 304 (455)
..+..+.+..+.+..| ++++.++. .-+.+.|..+|+.+...+ +. ..+.+++.|...
T Consensus 186 ~~~~~~~v~~~~~~~g---~~~~~~~~~~~~~~~~~y~~~L~~~~~~~~~~~p~~~~~~~~~~~~~Dna~ 252 (345)
T 3hot_A 186 RFGKKTMLCVWWDQSG---VIYYELLKPGETVNAARYQQQLINLNRALQRKRPEYQKRQHRVIFLHDNAP 252 (345)
T ss_dssp TTCCEEEEEEEEESSS---EEEEEEECSSCCCCHHHHHHHHHHHHHHHHHHSTTCC---CCCEEECCCCT
T ss_pred CcCCcEEEEEEEcccC---ceeeEecCCCCcccHHHHHHHHHHHHHHHHHhchhhhcCCCceEEEECCCC
Confidence 3455666667777777 45555555 567888888888765432 22 235678999855
No 9
>1je8_A Nitrate/nitrite response regulator protein NARL; protein-DNA complex, two-component response regulator, helix-turn-helix, DNA bending; 2.12A {Escherichia coli} SCOP: a.4.6.2 PDB: 1zg1_A 1zg5_A
Probab=55.03 E-value=11 Score=26.50 Aligned_cols=74 Identities=12% Similarity=0.085 Sum_probs=40.5
Q ss_pred CCCCCCCCccccccccccCCCCHHHHHhHHHHhhcCCCcchhhHHHhhccCCccccccccccccchhhhhcccccCCCHH
Q 046720 108 DHNHPLTTPRRVHLLRSHRNVSEVKRSLTHQLAAANIPIHQQISVLELQGGGIQNIGCLGKDLYNDETKSKNKVKGHDAD 187 (455)
Q Consensus 108 ~HNH~~~~~~~~~~~~~~r~ls~~~~~~i~~l~~~g~~~~~I~~~l~~~~g~~~~~~~t~~di~n~~~~~r~~~~~~d~~ 187 (455)
.++|++..+.... ..-..+++.++..+.. ...|.+..+|.+.+. ++...|++.+.+.+.++......
T Consensus 4 ~~~~~~~~~~~~~--~~~~~Lt~~e~~vl~l-~~~g~s~~eIA~~l~----------is~~tV~~~l~r~~~kL~~~~~~ 70 (82)
T 1je8_A 4 SHHHHHHGSATTE--RDVNQLTPRERDILKL-IAQGLPNKMIARRLD----------ITESTVKVHVKHMLKKMKLKSRV 70 (82)
T ss_dssp ---------------CCGGGSCHHHHHHHHH-HTTTCCHHHHHHHHT----------SCHHHHHHHHHHHHHHTTCSSHH
T ss_pred ccCCCCCCchHHH--HHHccCCHHHHHHHHH-HHcCCCHHHHHHHHC----------cCHHHHHHHHHHHHHHHcCCCHH
Confidence 4555554433222 3345788888777665 577888877777653 34455677777777776666655
Q ss_pred HHHHHHH
Q 046720 188 MLLEHFQ 194 (455)
Q Consensus 188 ~l~~~l~ 194 (455)
.++.+..
T Consensus 71 ~l~~~a~ 77 (82)
T 1je8_A 71 EAAVWVH 77 (82)
T ss_dssp HHHHHHH
T ss_pred HHHHHHH
Confidence 5555543
No 10
>1bco_A MUA domain II, bacteriophage MU transposase; polynucleotidyl transferase, DNA binding, endonuclease, integrase; 2.40A {Enterobacteria phage MU} SCOP: b.48.1.1 c.55.3.3 PDB: 1bcm_A
Probab=52.43 E-value=25 Score=32.23 Aligned_cols=71 Identities=11% Similarity=0.034 Sum_probs=48.6
Q ss_pred CcEEEEeeeecccc----CCc--eeeeEEEEeeCCcceeehhhhccCcchhhHHHHHHHHHHHCCCCCCc--eEecCcCH
Q 046720 233 GDVVVFDTTYNTNK----YGM--IFAPFIGVNNHGQTTVFACSFLSDETTESFVWLFEQFKKAMPGDLPK--MIITDQDP 304 (455)
Q Consensus 233 ~~v~~~D~t~~~~~----~~~--~l~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~p~--~ii~D~~~ 304 (455)
.+++.+|.|+.... .+. ..++.+.+|.. ...++|+.+...++.+....+|.......| .|. .|.+|...
T Consensus 16 ~~~w~~D~t~~d~~~~~~~g~~~r~~l~~~iD~~-SR~ivg~~~~~~~~~~~v~~aL~~a~~~~G--~P~~~~i~sDnG~ 92 (327)
T 1bco_A 16 MQWINGDGYLHNVFVRWFNGDVIRPKTWFWQDVK-TRKILGWRCDVSENIDSIRLSFMDVVTRYG--IPEDFHITIDNTR 92 (327)
T ss_dssp TTEEEEEEEECSBCEECTTSCEECCEEEEEEETT-TCCEEEEEEESSCCHHHHHHHHHHHHHHHC--EESSCEEECCCTT
T ss_pred CcEEEecCCEEEEEEECCCCccceeEEEEEEECC-CCcEEEEEEECCCCHHHHHHHHHHHHHhcC--CCCCcEEEeeCch
Confidence 37899998865332 121 24455556655 456688888889998888888877666544 577 99999875
Q ss_pred HH
Q 046720 305 AI 306 (455)
Q Consensus 305 ~~ 306 (455)
..
T Consensus 93 ~f 94 (327)
T 1bco_A 93 GA 94 (327)
T ss_dssp ST
T ss_pred hh
Confidence 43
No 11
>3l3u_A POL polyprotein; DNA integration, AIDS, integrase, endonuclease, polynucleotidyl transferase, DNA binding, viral protein; 1.40A {Human immunodeficiency virus 1} PDB: 3ao1_A 3l3v_A* 3ovn_A* 3ao2_A* 3ao3_A* 3ao4_A* 3ao5_A* 2itg_A 1biz_A 1biu_A 1b9d_A 4dmn_A* 2b4j_A 1itg_A 1b92_A 1bl3_A 1bi4_A 1bis_A 1b9f_A 1bi4_B ...
Probab=49.15 E-value=45 Score=26.43 Aligned_cols=63 Identities=16% Similarity=0.138 Sum_probs=43.6
Q ss_pred cEEEEeeeeccccCCceeeeEEEEeeCCcceeehhhhccCcchhhHHHHHHHHHHHCCCCCCceEecCcCHHH
Q 046720 234 DVVVFDTTYNTNKYGMIFAPFIGVNNHGQTTVFACSFLSDETTESFVWLFEQFKKAMPGDLPKMIITDQDPAI 306 (455)
Q Consensus 234 ~v~~~D~t~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~p~~ii~D~~~~~ 306 (455)
+++.+|.|+..+ .+.++.+|...+.. +++.+ .+++.+....+|..+....| +..|.+|.....
T Consensus 10 ~~w~~D~t~~~g-----~y~~~~iD~~sr~~-~~~~~-~~~~~~~~~~~l~~~~~~~~---~~~i~sD~G~~f 72 (163)
T 3l3u_A 10 GIWQLDCTHLEG-----KVILVAVHVASGYI-EAEVI-PAETGQETAYFLLKLAGRWP---VKTVHTDNGSNF 72 (163)
T ss_dssp TEEEEEEEEETT-----EEEEEEEETTTCCE-EEEEE-SSCCHHHHHHHHHHHHHHSC---CCEEEECCCGGG
T ss_pred CEEEEEecccCC-----cEEEEEEecCCCcE-EEEEe-CCCcHHHHHHHHHHHHHHcC---CcEEeecChHhh
Confidence 688899998753 25677777776554 55444 56677777777766666654 479999997654
No 12
>2nrr_A Uvrabc system protein C; UVRC, endonuclase, NER, hydrolase; 1.20A {Thermotoga maritima}
Probab=48.59 E-value=24 Score=28.43 Aligned_cols=23 Identities=26% Similarity=0.382 Sum_probs=20.9
Q ss_pred CCCceEecCcCHHHHHHHHhhCC
Q 046720 293 DLPKMIITDQDPAITKAISETLP 315 (455)
Q Consensus 293 ~~p~~ii~D~~~~~~~ai~~vfp 315 (455)
..|..|++|+-++..+|..+++-
T Consensus 78 ~~PDLilIDGGkgQl~aA~~vl~ 100 (159)
T 2nrr_A 78 PLPNLLFVDGGIGQVNAAIEALK 100 (159)
T ss_dssp CCCSEEEESSCHHHHHHHHHHHH
T ss_pred CCCCEEEEeCCHHHHHHHHHHHH
Confidence 67999999999999999998874
No 13
>2lju_A Putative oxidoreductase; structural genomics, seattle structural GENO center for infectious disease, ssgcid; NMR {Ehrlichia chaffeensis}
Probab=47.83 E-value=17 Score=27.27 Aligned_cols=29 Identities=10% Similarity=0.069 Sum_probs=23.4
Q ss_pred CCCCCccCCHHHHHHHHHHHhcccCeEEEEece
Q 046720 15 ARLGQEFVLLDDVHEFYNEYAKKVGFSVRINSS 47 (455)
Q Consensus 15 p~~g~~F~s~~e~~~~~~~ya~~~gf~i~~~~s 47 (455)
-.+.+.|+|.|+|. .||+++|..+.+..-
T Consensus 60 ~qv~L~F~skE~Ai----ayAek~G~~y~V~ep 88 (108)
T 2lju_A 60 QQVCLSFTTRELAI----AYAVAHKIDYTVLQD 88 (108)
T ss_dssp CCSCEEESSHHHHH----HHHHHTTCEEEEECS
T ss_pred ccceEecCCHHHHH----HHHHHcCCEEEEecC
Confidence 44678999999997 688999988876554
No 14
>3u5c_N S27A, YS15, 40S ribosomal protein S13; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_O 3o30_G 3o2z_G 3u5g_N 3iz6_O 3jyv_O* 1ysh_E 1s1h_O
Probab=47.74 E-value=14 Score=29.35 Aligned_cols=44 Identities=16% Similarity=0.024 Sum_probs=32.2
Q ss_pred CCCH-HHHHhHHHHhhcCCCcchhhHHHhhccCCccccccccccc
Q 046720 127 NVSE-VKRSLTHQLAAANIPIHQQISVLELQGGGIQNIGCLGKDL 170 (455)
Q Consensus 127 ~ls~-~~~~~i~~l~~~g~~~~~I~~~l~~~~g~~~~~~~t~~di 170 (455)
..++ +..+.|..+.+.|.+|++|--.+++++|-+.-..+|-+.|
T Consensus 27 ~~~~eeVe~~I~klakkG~tpSqIG~iLRD~~GIp~Vk~vtG~kI 71 (151)
T 3u5c_N 27 KLSSESVIEQIVKYARKGLTPSQIGVLLRDAHGVTQARVITGNKI 71 (151)
T ss_dssp CSCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCSCHHHHSSSCH
T ss_pred CCCHHHHHHHHHHHHHCCCCHHHhhhHHhccCCCCCeeeecccHH
Confidence 3444 5677888999999999999999999998544333443333
No 15
>2xzm_O RPS13E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_O 1ysh_E 3jyv_O* 1s1h_O
Probab=46.19 E-value=15 Score=29.16 Aligned_cols=37 Identities=22% Similarity=-0.017 Sum_probs=29.2
Q ss_pred HHHHHhHHHHhhcCCCcchhhHHHhhccCCccccccc
Q 046720 130 EVKRSLTHQLAAANIPIHQQISVLELQGGGIQNIGCL 166 (455)
Q Consensus 130 ~~~~~~i~~l~~~g~~~~~I~~~l~~~~g~~~~~~~t 166 (455)
++..+.|..+.+.|.+|++|--.|++++|-+.--.+|
T Consensus 33 eeVe~~I~klakkG~tpSqIG~iLRD~~GIp~Vk~vt 69 (153)
T 2xzm_O 33 STVVDLSVKLAKKGLTPSQIGVILRDQHGIPQVRFLT 69 (153)
T ss_dssp HHHHHHHHHHHHTTCCHHHHHHHHHHSSCCSCHHHHH
T ss_pred HHHHHHHHHHHHCCCCHHHhhhHHhhcCCCCCeeeec
Confidence 4567788899999999999999999999854333333
No 16
>2jya_A AGR_C_3324P, uncharacterized protein ATU1810; protein with unknown function ATU1810, ontario centre for ST proteomics, OCSP; NMR {Agrobacterium tumefaciens str}
Probab=44.82 E-value=7.2 Score=29.10 Aligned_cols=29 Identities=17% Similarity=0.371 Sum_probs=23.0
Q ss_pred CCCCccCCHHHHHHHHHHHhcccCeEEEEecee
Q 046720 16 RLGQEFVLLDDVHEFYNEYAKKVGFSVRINSSR 48 (455)
Q Consensus 16 ~~g~~F~s~~e~~~~~~~ya~~~gf~i~~~~s~ 48 (455)
.+.+.|+|.|+|. .||+++|..+.+..-.
T Consensus 53 qv~L~F~skE~Ai----ayAek~G~~y~V~ep~ 81 (106)
T 2jya_A 53 QVKLTFETQEQAE----AYAQRKGIEYRVILPK 81 (106)
T ss_dssp EEEEEESSHHHHH----HHHHHHTCEEEECCCT
T ss_pred cceEecCCHHHHH----HHHHHcCCEEEEeCCC
Confidence 3568899999997 6788999888876543
No 17
>1x9b_A Hypothetical membrane protein TA0354_69_121; alpha protein, structural genomics, protein structure initiative, PSI; NMR {Thermoplasma acidophilum} SCOP: a.10.2.1
Probab=42.16 E-value=15 Score=22.73 Aligned_cols=44 Identities=23% Similarity=0.299 Sum_probs=30.4
Q ss_pred hHHhhhccCCCHHHHHHHHHHHHHHcCCCchHHHHHHHhhccccc
Q 046720 345 DFQKCIWKSLSRDDFDRNWLEIIEKGKLRDNAWLKSVFEIRSKWV 389 (455)
Q Consensus 345 ~~~~~~~~~~s~~~f~~~~~~~~~~~~~~~~~~l~~~~~~~~~W~ 389 (455)
.|...+ .++|...|.+.+.++-..-..-+..|...+-+.+++|-
T Consensus 8 ~Fe~~I-nS~SK~~Fv~nL~ELE~is~rlg~~Y~~~LeeaK~kWk 51 (53)
T 1x9b_A 8 KFESMI-NSPSKSVFVRNLNELEALAVRLGKSYRIQLDQAKEKWK 51 (53)
T ss_dssp HHHHHH-HSCCHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHHC
T ss_pred HHHHHh-CCccHHHHHHhHHHHHHHHHHHchHHHHHHHHHHHhhc
Confidence 456644 78899999999888765322223567777777778884
No 18
>2nrt_A Uvrabc system protein C; UVRC, endonuclease, RNAse H, helix hairpin helix, NER, hydrolase; 1.50A {Thermotoga maritima} PDB: 2nrv_A 2nrw_A 2nrx_A 2nrz_A
Probab=38.52 E-value=38 Score=29.00 Aligned_cols=23 Identities=26% Similarity=0.382 Sum_probs=21.0
Q ss_pred CCCceEecCcCHHHHHHHHhhCC
Q 046720 293 DLPKMIITDQDPAITKAISETLP 315 (455)
Q Consensus 293 ~~p~~ii~D~~~~~~~ai~~vfp 315 (455)
..|..|++|+-++..+|..+|+-
T Consensus 83 ~~PDLiliDGGkgQl~~a~~vl~ 105 (220)
T 2nrt_A 83 PLPNLLFVDGGIGQVNAAIEALK 105 (220)
T ss_dssp CCCSEEEESSSHHHHHHHHHHHH
T ss_pred CCCCEEEEeCCHHHHHHHHHHHH
Confidence 67999999999999999999874
No 19
>2l69_A Rossmann 2X3 fold protein; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Artificial gene}
Probab=38.44 E-value=21 Score=25.48 Aligned_cols=30 Identities=27% Similarity=0.327 Sum_probs=25.3
Q ss_pred CccCCHHHHHHHHHHHhcccCeEEEEecee
Q 046720 19 QEFVLLDDVHEFYNEYAKKVGFSVRINSSR 48 (455)
Q Consensus 19 ~~F~s~~e~~~~~~~ya~~~gf~i~~~~s~ 48 (455)
..|++-+|-...+.+.-+++||.++..+|.
T Consensus 6 vvfstdeetlrkfkdiikkngfkvrtvrsp 35 (134)
T 2l69_A 6 VVFSTDEETLRKFKDIIKKNGFKVRTVRSP 35 (134)
T ss_dssp EECCCCHHHHHHHHHHHHHTTCEEEEECSH
T ss_pred EEEeCCHHHHHHHHHHHHhcCceEEEecCH
Confidence 368888888888889999999999987775
No 20
>3j20_Q 30S ribosomal protein S15P/S13E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=37.33 E-value=32 Score=27.55 Aligned_cols=40 Identities=13% Similarity=-0.111 Sum_probs=30.6
Q ss_pred CCCH-HHHHhHHHHhhcCCCcchhhHHHhhccCCccccccc
Q 046720 127 NVSE-VKRSLTHQLAAANIPIHQQISVLELQGGGIQNIGCL 166 (455)
Q Consensus 127 ~ls~-~~~~~i~~l~~~g~~~~~I~~~l~~~~g~~~~~~~t 166 (455)
..++ +..+.|..+.+.|.+|++|--.+++++|-+.-..+|
T Consensus 27 ~~~~eev~~~i~klakkG~~pSqIG~~LRD~~gip~Vk~vt 67 (158)
T 3j20_Q 27 EYTVEEIENLVVKLRKEGYSTAMIGTILRDQYGIPSVKLFK 67 (158)
T ss_dssp CCCHHHHHHHHHHHHHHTCCHHHHHHHHHHTTCCSCHHHHH
T ss_pred CCCHHHHHHHHHHHHHCCCCHHHhhHHHhccCCCCCeeecc
Confidence 3444 557788899999999999999999999854433344
No 21
>2x78_A Integrase; viral protein, DNA-directed DNA polyme nucleotidyltransferase, DNA integration, aspartyl protease, recombination, transferase; 2.00A {Human spumaretrovirus} PDB: 2x6n_A 2x6s_A 2x74_A 3dlr_A
Probab=34.17 E-value=1e+02 Score=25.22 Aligned_cols=69 Identities=16% Similarity=0.124 Sum_probs=43.2
Q ss_pred cEEEEee-eeccccCCceeeeEEEEeeCCcceeehhhhccCcchhhHHHHHHHHHHHCCCCCCceEecCcCHHHHH
Q 046720 234 DVVVFDT-TYNTNKYGMIFAPFIGVNNHGQTTVFACSFLSDETTESFVWLFEQFKKAMPGDLPKMIITDQDPAITK 308 (455)
Q Consensus 234 ~v~~~D~-t~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~p~~ii~D~~~~~~~ 308 (455)
++|.+|- ++.... ++..++++.+|..-+. ++++.+ .+.+.+....+|+.+. ....|..|.+|......+
T Consensus 14 ~~~~~D~~~~~~~~-~g~~y~~~~iD~~Sr~-~~~~~~-~~~~~~~~~~~l~~~~---~~g~p~~i~sDnG~~f~s 83 (200)
T 2x78_A 14 DKFFIDYIGPLPPS-QGYLYVLVVVDGMTGF-TWLYPT-KAPSTSATVKSLNVLT---SIAIPRVIHSDQGAAFTS 83 (200)
T ss_dssp SEEEEEEECCCSCB-TTBCEEEEEEETTTCC-EEEEEE-SSSCHHHHHHHHHHHT---TTCCCSEEEECSCHHHHS
T ss_pred cEEEEEEeCCCccC-CCCeEEEEEEeCCCCc-EEEEEC-CCCCHHHHHHHHHHHH---HhCCCcEEEecCCcceeh
Confidence 6788886 433332 3456677777776544 445554 6666666555554443 335789999999887644
No 22
>1tqz_A Necap1; endocytosis, structural genomics, endocytosis/exocytosis complex; NMR {Mus musculus} SCOP: b.55.1.11
Probab=34.06 E-value=67 Score=24.93 Aligned_cols=88 Identities=11% Similarity=0.118 Sum_probs=60.8
Q ss_pred cCCCeEEEEeecCCCceeeeEecccccchhhhhcCc----EEEEeeeeccccCCceeeeEEEEeeCCcceeehhhhccCc
Q 046720 199 KNSAFTFTIESDNENRITHCFWADATSRRGYNSFGD----VVVFDTTYNTNKYGMIFAPFIGVNNHGQTTVFACSFLSDE 274 (455)
Q Consensus 199 ~~p~~~~~~~~d~~~~~~~i~~~~~~~~~~~~~~~~----v~~~D~t~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~e 274 (455)
.+|-|.-.+.+-+.|..-.|-+..+..-++|..||- -..|..+-..++| +++-..|+.|+.-.+|.+|-...
T Consensus 39 ~~~~wtGrlrv~~~g~~~~I~LeD~~tGeLFA~cPv~~~~~~~VE~v~DSSRY----FVlRv~d~~gr~AfiGiGF~eR~ 114 (133)
T 1tqz_A 39 DQPDWTGRLRITSKGKIAYIKLEDKVSGELFAQAPVEQYPGIAVETVTDSSRY----FVIRIQDGTGRSAFIGIGFTDRG 114 (133)
T ss_dssp SSSCEEEEEEEECCSSSEEEEEECSSCCSSCEEEEECSSCCCCEEECTTCCSC----EEEEEEETTTEEEEEEEECSCHH
T ss_pred CCceeEEEEEEEEeCCEEEEEEEeCCCCcEEEeCcccCCCCcceEEeecCcCe----EEEEEECCCCcEEEEeeeecccc
Confidence 456666666666666666677777777788877662 1223333333333 45566788999999999999999
Q ss_pred chhhHHHHHHHHHHHC
Q 046720 275 TTESFVWLFEQFKKAM 290 (455)
Q Consensus 275 ~~~~~~~~l~~~~~~~ 290 (455)
+.-++.-.|+...+.+
T Consensus 115 dAFDF~vaLqd~~k~~ 130 (133)
T 1tqz_A 115 DAFDFNVSLQDHFKWV 130 (133)
T ss_dssp HHHHHHHHHHHHHSCS
T ss_pred cccchHHHHHHHHHHH
Confidence 9999999888776543
No 23
>2bw3_A Transposase; DNA recombination, transposition; 2.0A {Musca domestica} SCOP: a.270.1.1 c.55.3.12 PDB: 2bw3_B
Probab=32.06 E-value=1.3e+02 Score=29.28 Aligned_cols=66 Identities=14% Similarity=0.233 Sum_probs=44.2
Q ss_pred eeehhhhcc--CcchhhHHHHHHHHHHHCCCCC--CceEecCcCHHHHHHHHhhCCcCccchhhhHHHHHHHhh
Q 046720 264 TVFACSFLS--DETTESFVWLFEQFKKAMPGDL--PKMIITDQDPAITKAISETLPNTFHRYCIWHILNKFSDK 333 (455)
Q Consensus 264 ~~~~~~~~~--~e~~~~~~~~l~~~~~~~~~~~--p~~ii~D~~~~~~~ai~~vfp~~~~~~C~~Hi~~~~~~~ 333 (455)
.++++.-+. ..+.+.....+....+..+... -..++||....+..|+.. ..+..|.-|++.-+.+.
T Consensus 132 ~~L~~~~~~~~~~t~~~i~~~i~~~l~~~~l~~~~~v~~vtDnasn~~~~~~~----~~~i~C~~H~lnLi~~~ 201 (534)
T 2bw3_A 132 LILGLKSLDFERSTAENIYKKLKAIFSQFNVEDLSSIKFVTDRGANVVKSLAN----NIRINCSSHLLSNVLEN 201 (534)
T ss_dssp EEEEEEEECGGGCSHHHHHHHHHHHHHTTTCCCCTTCEEEECCCHHHHHHTTT----SEEEECHHHHHHHHHHH
T ss_pred EEEeEeecCCCCCCHHHHHHHHHHHHHHcCCCcccceeEECCCHHHHHHHHhc----CcccccHHHHHHHHHHH
Confidence 355555455 3566776666666666655433 446899999988777654 35778999988776554
No 24
>1c6v_A Protein (SIV integrase); DNA integration, DNA binding protein; 3.00A {Simian immunodeficiency virus} SCOP: c.55.3.2
Probab=31.53 E-value=1.5e+02 Score=23.00 Aligned_cols=62 Identities=13% Similarity=0.004 Sum_probs=36.5
Q ss_pred cEEEEeeeeccccCCceeeeEEEEeeCCcceeehhhhccCcchhhHHHHHHHHHHHCCCCCCceEecCcCHH
Q 046720 234 DVVVFDTTYNTNKYGMIFAPFIGVNNHGQTTVFACSFLSDETTESFVWLFEQFKKAMPGDLPKMIITDQDPA 305 (455)
Q Consensus 234 ~v~~~D~t~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~p~~ii~D~~~~ 305 (455)
.++.+|.++. ++. +.++.+|..-+ .++++.+ .+.+.+....++..+.... .|.+|.+|....
T Consensus 10 ~~w~~D~~~~----~g~-~~l~~iD~~Sr-~~~~~~~-~~~~~~~~~~~~~~~~~~~---~~~~i~sDnG~~ 71 (164)
T 1c6v_A 10 GTWQMDCTHL----EGK-IVIVAVHVASG-FIEAEVI-PQETGRQTALFLLKLAGRW---PITHLHTDNGAN 71 (164)
T ss_dssp TEEEEEEEEE----TTE-EEEEEECTTSC-CEEEEEC-SSCSHHHHHHHHHHHHTTS---CCCEEECCCCSS
T ss_pred CEEEEeeccc----CCE-EEEEEEEccCC-EEEEEEc-CCCchHHHHHHHHHHHHhc---CCCEEEeCCchh
Confidence 6788888877 222 34444666544 4455544 4556555555544443333 378999998654
No 25
>3c65_A Uvrabc system protein C; UVRC, endonuclease, nucleotide excision repair, DNA repair, RNAse H, cytoplasm, DNA damage, DNA excision; 1.90A {Bacillus stearothermophilus}
Probab=30.10 E-value=44 Score=28.78 Aligned_cols=22 Identities=32% Similarity=0.514 Sum_probs=20.7
Q ss_pred CCCceEecCcCHHHHHHHHhhC
Q 046720 293 DLPKMIITDQDPAITKAISETL 314 (455)
Q Consensus 293 ~~p~~ii~D~~~~~~~ai~~vf 314 (455)
..|..|++|+-++..+|..+|+
T Consensus 81 ~~PDLiliDGGkgQl~~a~~vl 102 (226)
T 3c65_A 81 PLPDLIIIDGGKGHLSAVRDVL 102 (226)
T ss_dssp CCCSEEEESSCHHHHHHHHHHH
T ss_pred CCCCEEEEeCCHHHHHHHHHHH
Confidence 5799999999999999999998
No 26
>1fme_A FSD-EY peptide; beta-BETA-alpha, zinc finger, designed protein, de novo protein; NMR {Synthetic} SCOP: k.12.1.1 PDB: 1fsd_A 1fsv_A 2k6r_A* 1psv_A
Probab=30.05 E-value=33 Score=17.67 Aligned_cols=21 Identities=14% Similarity=0.387 Sum_probs=17.6
Q ss_pred CCCCCccCCHHHHHHHHHHHh
Q 046720 15 ARLGQEFVLLDDVHEFYNEYA 35 (455)
Q Consensus 15 p~~g~~F~s~~e~~~~~~~ya 35 (455)
...|..|....|+++|+..|-
T Consensus 6 kykgrtfrnekelrdfiekfk 26 (28)
T 1fme_A 6 KYKGRTFRNEKELRDFIEKFK 26 (28)
T ss_dssp ESSSCEECCHHHHHHHHHHCC
T ss_pred hhcccccccHHHHHHHHHHhc
Confidence 456899999999999998763
No 27
>3f2k_A Histone-lysine N-methyltransferase setmar; histone-lysine N-methyltransferase setmar, SET domain and mariner transposase fusion; 1.85A {Homo sapiens} PDB: 3k9k_A 3k9j_A
Probab=29.62 E-value=1.6e+02 Score=24.95 Aligned_cols=62 Identities=11% Similarity=0.050 Sum_probs=37.2
Q ss_pred ccccCCceeeeEEEEeeCCcceeehhhhc---cCcchhhHHHHHHHHHHH----CC---CCCCceEecCcCHHHH
Q 046720 243 NTNKYGMIFAPFIGVNNHGQTTVFACSFL---SDETTESFVWLFEQFKKA----MP---GDLPKMIITDQDPAIT 307 (455)
Q Consensus 243 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~---~~e~~~~~~~~l~~~~~~----~~---~~~p~~ii~D~~~~~~ 307 (455)
.++.++..+.+.++.+..|...+. ++ ..-+.+.|..+|+.+... .+ .....+++-|.++.-.
T Consensus 65 ~~~~~~~~vmv~~~~s~~G~~~~~---~l~~~~tinse~Y~~~l~~l~~~l~~~~~~~~~~~~~i~~~Dna~~H~ 136 (226)
T 3f2k_A 65 KPILHPKKVMVTIWWSAAGLIHYS---FLNPGETITSEKYAQEIDEMNQKLQRLQLALVNRKGPILLHDNARPHV 136 (226)
T ss_dssp ----CCCEEEEEEEEETTEEEEEE---ECCTTCCCSHHHHHHHHHHHHHHHHHHTC----CCCCEEECCCCHHHH
T ss_pred ccccCCcceEEEEEeecCCcEEEE---EecCCcccCHHHHHHHHHHHHHHHhhhhhHhhccCCcEEEeCCCccch
Confidence 345566677777888888765443 44 356778888888765332 22 2345678889887543
No 28
>3av9_A Integrase, IN; protein-protein interactions, HIV, recombination-inhibitor C; 1.70A {Human immunodeficiency virus type 1} PDB: 3ava_A 3avb_A 3avc_A 3avg_A 3avh_A 3avi_A 3avj_A 3avk_A 3avl_A 3avm_A 3avn_A 3nf6_A* 3nf7_A* 3nf8_A* 3nf9_A* 3nfa_A* 3avf_A
Probab=27.65 E-value=1.4e+02 Score=24.00 Aligned_cols=65 Identities=17% Similarity=0.172 Sum_probs=37.8
Q ss_pred cEEEEeeeeccccCCceeeeEEEEeeCCcceeehhhhccCcchhhHHHHHHHHHHHCCCCCCceEecCcCHHHHH
Q 046720 234 DVVVFDTTYNTNKYGMIFAPFIGVNNHGQTTVFACSFLSDETTESFVWLFEQFKKAMPGDLPKMIITDQDPAITK 308 (455)
Q Consensus 234 ~v~~~D~t~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~p~~ii~D~~~~~~~ 308 (455)
.++.+|.++..+ .. .++.+|..-+ .++++.+ .+++......++..+....+ +..|.+|......+
T Consensus 30 ~~w~~D~~~~~g----~~-~l~~vD~~Sr-~~~~~~~-~~~~~~~~~~~~~~~~~~~~---~~~i~sDnG~ef~s 94 (183)
T 3av9_A 30 GIWQLDCTHLEG----KV-ILVAVHVASG-YIEAEVI-PAETGQETAYFLLKLAGRWP---VKTVHTDNGSNFTS 94 (183)
T ss_dssp TEEEEEEEEETT----EE-EEEEEETTTT-EEEEEEE-SSCCHHHHHHHHHHHHHHSC---CCEEECSSHHHHHC
T ss_pred CEEEEeccccCC----cE-EEEEEECCCC-CEEEEEe-CCccchHHHHHHHHHHHHcC---CcEEEecCchhcch
Confidence 678888887622 22 3444455444 4466544 44555554444444444443 48999999877643
No 29
>2kw0_A CCMH protein; oxidoreductase, cytochrome C maturation; NMR {Escherichia coli}
Probab=25.85 E-value=27 Score=25.14 Aligned_cols=36 Identities=11% Similarity=0.087 Sum_probs=31.3
Q ss_pred ccCCCCHHHHHhHHHHhhcCCCcchhhHHHhhccCC
Q 046720 124 SHRNVSEVKRSLTHQLAAANIPIHQQISVLELQGGG 159 (455)
Q Consensus 124 ~~r~ls~~~~~~i~~l~~~g~~~~~I~~~l~~~~g~ 159 (455)
|+-.+..+.|..|..+...|-+..+|++.+...+|.
T Consensus 37 SnA~iA~dlR~~Vre~l~~G~Sd~eI~~~mv~RYGd 72 (90)
T 2kw0_A 37 SNSMIATDLRQKVYELMQEGKSKKEIVDYMVARYGN 72 (90)
T ss_dssp CCCHHHHHHHHHHHHHHHHTCCHHHHHHHHHHHHTT
T ss_pred cCcHHHHHHHHHHHHHHHcCCCHHHHHHHHHHhcCC
Confidence 344566778999999999999999999999999985
No 30
>3dom_A RNA polymerase II transcription factor B subunit; protein-protein complex, heterodimer, beta-alpha-beta split, strand addition; 2.60A {Saccharomyces cerevisiae}
Probab=25.26 E-value=72 Score=23.75 Aligned_cols=39 Identities=23% Similarity=0.510 Sum_probs=28.8
Q ss_pred ccCCHHHHHHHHHHHhcccCeEEEEeceecCCCCcEEEEEEEecCCCCc
Q 046720 20 EFVLLDDVHEFYNEYAKKVGFSVRINSSRKSHRGEIVRKEYVCSKEGAT 68 (455)
Q Consensus 20 ~F~s~~e~~~~~~~ya~~~gf~i~~~~s~~~~~~~~~~~~~~C~r~g~~ 68 (455)
.|.|.+| ++.+..||+..|.-++....++ .|+.+..|..
T Consensus 56 dF~s~~e-fe~v~~yA~e~gvLlW~d~~kr---------~~~Vs~egh~ 94 (108)
T 3dom_A 56 DFETSQE-YNLLSKYAQDIGVLLWKDDKKK---------KFFISKEGNS 94 (108)
T ss_dssp CCSCHHH-HHHHHHHHHHHTCEEEEEGGGT---------EEEEEGGGHH
T ss_pred cCCCHHH-HHHHHHHHHHcCeEEEecCCcc---------EEEEeccchH
Confidence 4888666 7889999999999998655544 5666666543
No 31
>2hl7_A Cytochrome C-type biogenesis protein CCMH; three-helices bundle, oxidoreductase; HET: PG4; 1.70A {Pseudomonas aeruginosa}
Probab=24.60 E-value=30 Score=24.58 Aligned_cols=36 Identities=8% Similarity=-0.025 Sum_probs=30.9
Q ss_pred ccCCCCHHHHHhHHHHhhcCCCcchhhHHHhhccCC
Q 046720 124 SHRNVSEVKRSLTHQLAAANIPIHQQISVLELQGGG 159 (455)
Q Consensus 124 ~~r~ls~~~~~~i~~l~~~g~~~~~I~~~l~~~~g~ 159 (455)
|+-.+..+.|..|..+...|-+..+|++.+...+|.
T Consensus 40 Sna~iA~dlR~~V~~~l~~G~sd~eI~~~~v~RYG~ 75 (84)
T 2hl7_A 40 SNAPIAADLRKQIYGQLQQGKSDGEIVDYMVARYGD 75 (84)
T ss_dssp CCSHHHHHHHHHHHHHHHHTCCHHHHHHHHHHHHTT
T ss_pred cCcHHHHHHHHHHHHHHHcCCCHHHHHHHHHHhcCC
Confidence 344566678899999999999999999999999985
No 32
>2fcj_A Small toprim domain protein; structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: MES; 1.30A {Geobacillus stearothermophilus} SCOP: c.136.1.1 PDB: 2i5r_A*
Probab=24.39 E-value=86 Score=23.86 Aligned_cols=39 Identities=18% Similarity=0.425 Sum_probs=28.6
Q ss_pred HHHHHHHCCCCCCceEecCcCHH---HHHHHHhhCCcCccchh
Q 046720 283 FEQFKKAMPGDLPKMIITDQDPA---ITKAISETLPNTFHRYC 322 (455)
Q Consensus 283 l~~~~~~~~~~~p~~ii~D~~~~---~~~ai~~vfp~~~~~~C 322 (455)
++.+.+.. .....+++||.|.+ +++.+.+.+|++.|.+-
T Consensus 41 l~~I~~~~-~~r~VIi~TD~D~~GekIRk~i~~~lp~~~hafi 82 (119)
T 2fcj_A 41 LEELADEL-EGYDVYLLADADEAGEKLRRQFRRMFPEAEHLYI 82 (119)
T ss_dssp HHHHHHHT-TTSEEEEECCSSHHHHHHHHHHHHHCTTSEEECC
T ss_pred HHHHHHHh-cCCCEEEEECCCccHHHHHHHHHHHCCCCcEEec
Confidence 34444442 25567789999986 78889999999987754
No 33
>1ex4_A Integrase; SH3-like domain, nonspecific DNA binding beta sheet, CIS-Pro viral protein; HET: CPS; 2.80A {Human immunodeficiency virus 1} SCOP: b.34.7.1 c.55.3.2 PDB: 1qmc_A 1ihv_A 1ihw_A
Probab=23.98 E-value=2.1e+02 Score=24.31 Aligned_cols=65 Identities=17% Similarity=0.112 Sum_probs=38.1
Q ss_pred cEEEEeeeeccccCCceeeeEEEEeeCCcceeehhhhccCcchhhHHHHHHHHHHHCCCCCCceEecCcCHHHHH
Q 046720 234 DVVVFDTTYNTNKYGMIFAPFIGVNNHGQTTVFACSFLSDETTESFVWLFEQFKKAMPGDLPKMIITDQDPAITK 308 (455)
Q Consensus 234 ~v~~~D~t~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~p~~ii~D~~~~~~~ 308 (455)
.++.+|.|+..+ . +.++.+|.. ...++++.+-. ++......++..+.... .|..|.||......+
T Consensus 10 ~~w~~D~t~~~g----~-~~l~~vD~~-Sr~i~~~~~~~-~~~~~~~~~~~~~~~~~---~~~~i~sDnG~eF~s 74 (239)
T 1ex4_A 10 GIWQLDCTHLEG----K-VILVAVHVA-SGYIEAEVIPA-ETGQETAYFLLKLAGRW---PVKTIHTDNGSNFTG 74 (239)
T ss_dssp GEEEEEEEEETT----E-EEEEEECTT-TCCEEEECCSS-SSTTHHHHHHHHHHHHS---CCCEEEECCCHHHHC
T ss_pred CEEEEeccccCC----e-EEEEEEECC-CCeEEEEEeCC-CCHHHHHHHHHHHHHhc---CCcEEEecCcHHHHH
Confidence 578899988722 2 234444544 44556665544 44444444433333333 368999999988754
No 34
>2job_A Antilipopolysaccharide factor; ALF, lipid A binding protein, endotoxin, lipid binding protein; NMR {Penaeus monodon}
Probab=23.74 E-value=14 Score=27.05 Aligned_cols=32 Identities=13% Similarity=0.244 Sum_probs=24.8
Q ss_pred hcccccccccccccccccccCCCcchhhhhhhcc
Q 046720 384 IRSKWVPACVNHVFSAGMSSSQRAESCHSFFKRY 417 (455)
Q Consensus 384 ~~~~W~~~~~~~~~~~~~~Ttn~~Es~n~~lk~~ 417 (455)
.-..||+.|.+ +.+.-.|-+++++.+..++++
T Consensus 50 ~G~mWCPgWT~--i~Ges~TrSrsgvv~~a~rDF 81 (102)
T 2job_A 50 KGRMWCPGWTA--IRGEASTRSQSGVAGKTAKDF 81 (102)
T ss_dssp EEEEECBTTBS--CEEEEEESCHHHHHHHHHHHH
T ss_pred EEEEecCCccc--eecccccccccchhhhHHHHH
Confidence 34788888876 544557889999999999983
No 35
>3ulq_B Transcriptional regulatory protein COMA; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis} PDB: 2krf_A
Probab=22.73 E-value=70 Score=22.77 Aligned_cols=58 Identities=7% Similarity=-0.028 Sum_probs=40.1
Q ss_pred cCCCCHHHHHhHHHHhhcCCCcchhhHHHhhccCCccccccccccccchhhhhcccccCCCHHHHHHHH
Q 046720 125 HRNVSEVKRSLTHQLAAANIPIHQQISVLELQGGGIQNIGCLGKDLYNDETKSKNKVKGHDADMLLEHF 193 (455)
Q Consensus 125 ~r~ls~~~~~~i~~l~~~g~~~~~I~~~l~~~~g~~~~~~~t~~di~n~~~~~r~~~~~~d~~~l~~~l 193 (455)
...+++.+++.+.-+. .|.+..+|.+.+. ++.+.|++++.+...++.-.+...++.+.
T Consensus 27 ~~~Lt~rE~~Vl~l~~-~G~s~~eIA~~L~----------iS~~TV~~~~~~i~~Klgv~~r~~lv~~a 84 (90)
T 3ulq_B 27 QDVLTPRECLILQEVE-KGFTNQEIADALH----------LSKRSIEYSLTSIFNKLNVGSRTEAVLIA 84 (90)
T ss_dssp --CCCHHHHHHHHHHH-TTCCHHHHHHHHT----------CCHHHHHHHHHHHHHHTTCSSHHHHHHHH
T ss_pred ccCCCHHHHHHHHHHH-cCCCHHHHHHHHC----------cCHHHHHHHHHHHHHHHCCCCHHHHHHHH
Confidence 4567887777666544 8999888777763 44566788888888887777766666655
No 36
>2qh9_A UPF0215 protein AF_1433; structural genomics, PSI-2, MCSG, PR structure initiative; 1.80A {Archaeoglobus fulgidus}
Probab=21.80 E-value=1.5e+02 Score=24.51 Aligned_cols=67 Identities=9% Similarity=-0.009 Sum_probs=42.2
Q ss_pred cEEEEeeeeccccCCceeeeEEEEeeCCcceeehhhhccCcchhhHHHHHHHHHHHCCCCCCceEecCcCH
Q 046720 234 DVVVFDTTYNTNKYGMIFAPFIGVNNHGQTTVFACSFLSDETTESFVWLFEQFKKAMPGDLPKMIITDQDP 304 (455)
Q Consensus 234 ~v~~~D~t~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~p~~ii~D~~~ 304 (455)
.|+.+|..|. . +...+..+..+ +....-+.+..+.-.-.+++..+++.+.+.-....|.+||.|+.-
T Consensus 8 rv~GiDds~~--~-~~~~l~gvv~~-~~~v~g~~~~~~~vdG~dat~~i~~~~~~l~~~p~~~vvllDG~g 74 (184)
T 2qh9_A 8 RFLGIDDSFD--D-RKCCVVGCVTC-GGYVEGFLYTEIDIDGLDATDKLISMVRRSKFREQIKCIFLPGIT 74 (184)
T ss_dssp EEEEEEEEEC--S-SCEEEEEEEEE-TTEEEEEEEEEECTTCSCHHHHHHHHHTTCTTTTTEEEEEESSSE
T ss_pred EEEEEEcccC--C-CceEEEEEEEE-CCEEEEEEEEEEEECChhHHHHHHHHHHhcCCCCCCcEEEECCEe
Confidence 5888998886 2 33444444445 666666677777777777777666665443111225899999864
No 37
>3dgp_A RNA polymerase II transcription factor B subunit; protein-protein complex, beta-alpha-beta spilt, heterodimer, damage, DNA excision; 1.80A {Saccharomyces cerevisiae}
Probab=21.77 E-value=1e+02 Score=21.56 Aligned_cols=39 Identities=23% Similarity=0.471 Sum_probs=27.9
Q ss_pred ccCCHHHHHHHHHHHhcccCeEEEEeceecCCCCcEEEEEEEecCCCCc
Q 046720 20 EFVLLDDVHEFYNEYAKKVGFSVRINSSRKSHRGEIVRKEYVCSKEGAT 68 (455)
Q Consensus 20 ~F~s~~e~~~~~~~ya~~~gf~i~~~~s~~~~~~~~~~~~~~C~r~g~~ 68 (455)
.|.|. +.++.+..||+..|.-++....++ .|+.+..|..
T Consensus 28 ~F~s~-~efe~~~~yA~e~gvLlW~~~~kr---------~~~V~~~gh~ 66 (80)
T 3dgp_A 28 DFETS-QEYNLLSKYAQDIGVLLWKDDKKK---------KFFISKEGNS 66 (80)
T ss_dssp CCSCH-HHHHHHHHHHHHTTCEEEEETTTT---------EEEEEGGGHH
T ss_pred cCCCH-HHHHHHHHHHHHcCeEEEecCCcc---------EEEEeccchH
Confidence 48885 556788999999999998655443 5666665543
Done!