Query 043258
Match_columns 454
No_of_seqs 189 out of 1558
Neff 8.8
Searched_HMMs 29240
Date Mon Mar 25 04:46:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043258.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/043258hhsearch_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 96.1 0.017 5.9E-07 42.2 6.6 43 5-47 33-75 (76)
2 1wj2_A Probable WRKY transcrip 96.0 0.02 6.9E-07 42.0 6.6 43 4-46 35-77 (78)
3 3hot_A Transposable element ma 91.1 6.4 0.00022 37.2 15.8 60 177-239 185-253 (345)
4 3l3u_A POL polyprotein; DNA in 88.3 2.1 7.2E-05 35.6 8.8 65 165-241 9-73 (163)
5 1cxq_A Avian sarcoma virus int 87.3 3 0.0001 34.7 9.1 69 166-241 12-80 (162)
6 1c0m_A Protein (integrase); HI 84.6 4.6 0.00016 36.2 9.5 70 166-242 11-80 (238)
7 2x78_A Integrase; viral protei 82.1 6.4 0.00022 33.8 9.1 68 166-241 14-82 (200)
8 3f9k_A Integrase; protein-prot 79.7 13 0.00044 32.3 10.4 63 166-240 60-122 (210)
9 1q1v_A DEK protein; winged-hel 79.2 10 0.00035 27.0 7.6 44 51-94 10-57 (70)
10 3kks_A Integrase, IN; beta-str 74.8 11 0.00036 30.5 7.9 65 166-242 3-67 (152)
11 1c6v_A Protein (SIV integrase) 73.8 9.5 0.00032 31.2 7.4 63 166-240 10-72 (164)
12 1k6y_A Integrase; HIV-1, domai 69.4 38 0.0013 29.1 10.7 64 165-240 58-121 (212)
13 1ex4_A Integrase; SH3-like dom 67.3 28 0.00096 30.8 9.5 64 166-241 10-73 (239)
14 3av9_A Integrase, IN; protein- 66.6 11 0.00038 31.9 6.4 65 165-241 29-93 (183)
15 3hph_A Integrase, IN; protein- 55.3 31 0.0011 29.9 7.4 66 166-243 61-126 (219)
16 1bco_A MUA domain II, bacterio 54.4 28 0.00096 32.7 7.3 72 165-241 16-95 (327)
17 2l0z_A Glycoprotein G2; zinc-b 45.7 7.9 0.00027 24.1 1.2 15 391-405 21-35 (42)
18 2bw3_A Transposase; DNA recomb 45.6 84 0.0029 31.4 9.8 70 194-267 130-201 (534)
19 2ahq_A Sigma-54, RNA polymeras 44.5 31 0.0011 24.9 4.4 45 55-100 19-66 (76)
20 3oym_A PFV integrase, P42IN; p 44.4 59 0.002 31.0 8.0 69 166-241 126-194 (395)
21 2rpr_A Flywch-type zinc finger 43.4 20 0.00068 26.5 3.4 34 7-47 39-75 (87)
22 1pdn_C Protein (PRD paired); p 43.1 32 0.0011 26.6 4.9 39 58-97 81-124 (128)
23 2fcj_A Small toprim domain pro 39.5 32 0.0011 27.2 4.2 42 215-259 41-85 (119)
24 2p5k_A Arginine repressor; DNA 39.3 50 0.0017 22.1 4.9 35 63-98 12-46 (64)
25 1yb3_A Hypothetical protein; s 38.3 1.1E+02 0.0038 25.4 7.2 68 114-210 24-97 (175)
26 2k27_A Paired box protein PAX- 35.3 60 0.002 26.5 5.6 40 59-98 90-133 (159)
27 1k78_A Paired box protein PAX5 34.3 45 0.0015 26.9 4.6 39 59-97 97-139 (149)
28 2lsn_A Reverse transcriptase; 31.8 1.5E+02 0.0053 24.6 7.6 74 164-239 6-87 (165)
29 2qh9_A UPF0215 protein AF_1433 31.6 1.8E+02 0.0063 24.6 8.1 66 166-238 8-74 (184)
30 2nrr_A Uvrabc system protein C 21.9 1.5E+02 0.005 24.7 5.4 63 166-248 37-99 (159)
31 1b4a_A Arginine repressor; hel 21.4 1.1E+02 0.0036 25.2 4.5 39 59-98 8-46 (149)
32 3u5c_N S27A, YS15, 40S ribosom 21.3 81 0.0028 25.9 3.6 30 58-87 30-61 (151)
No 1
>2ayd_A WRKY transcription factor 1; beta strands, zinc finger; 1.60A {Arabidopsis thaliana}
Probab=96.07 E-value=0.017 Score=42.19 Aligned_cols=43 Identities=19% Similarity=0.247 Sum_probs=36.0
Q ss_pred CeEEEEEeccCCCccEEEEEEeCCCCeEEEEEecCCcccCCCC
Q 043258 5 SHIVSCECSDLSCDWQVTAIRDVRGKGFVITQFSPKHNCPRLD 47 (454)
Q Consensus 5 ~~r~~~~C~~~gC~~~v~~~~~~~~~~~~v~~~~~~Hnc~~~~ 47 (454)
-.|--++|+..|||++-.+.+..++....++.+.++|||+.+.
T Consensus 33 ~PRsYYrCt~~gC~a~K~Ver~~~d~~~~~~tY~G~H~H~~p~ 75 (76)
T 2ayd_A 33 YPRSYYRCSSPGCPVKKHVERSSHDTKLLITTYEGKHDHDMPP 75 (76)
T ss_dssp SCEEEEEECSTTCCCEEEEEECSSSTTEEEEEEESCCSSCCCC
T ss_pred CceeEeEcCCCCCCceeeEEEECCCCCEEEEEEccCcCCCCCC
Confidence 3456699999999999999998777777888999999998753
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=95.97 E-value=0.02 Score=42.04 Aligned_cols=43 Identities=19% Similarity=0.220 Sum_probs=36.0
Q ss_pred CCeEEEEEeccCCCccEEEEEEeCCCCeEEEEEecCCcccCCC
Q 043258 4 RSHIVSCECSDLSCDWQVTAIRDVRGKGFVITQFSPKHNCPRL 46 (454)
Q Consensus 4 ~~~r~~~~C~~~gC~~~v~~~~~~~~~~~~v~~~~~~Hnc~~~ 46 (454)
.-.|--++|+..|||++-.+.+..++....++.+.++|||+.+
T Consensus 35 ~~PRsYYrCt~~gC~a~K~Ver~~~d~~~~~~tY~G~H~H~~p 77 (78)
T 1wj2_A 35 PYPRSYYKCTTPGCGVRKHVERAATDPKAVVTTYEGKHNHDLP 77 (78)
T ss_dssp SSCEEEEEEECSSCEEEEEEEEETTTTSEEEEEEESCCSSCCC
T ss_pred cCeeEEeecCcCCCCcEeeEEEEcCCCCEEEEEEeeEcCCCCC
Confidence 3346669999999999999998877677778899999999875
No 3
>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=91.10 E-value=6.4 Score=37.25 Aligned_cols=60 Identities=15% Similarity=0.168 Sum_probs=40.0
Q ss_pred CCCCcceEEEEEEeCCCCeEEEEEEEee---cccchhHHHHHHHHHhhcc--ccC----CCcEEEEcCCcch
Q 043258 177 NPCNSVMLVAAGLDGNNGILPVAFCEVQ---VEDLDSWVYFLKNINSALR--LEN----GKGLCILGDGDNG 239 (454)
Q Consensus 177 ~~y~~~l~~~~g~d~~~~~~~la~al~~---~E~~e~~~w~l~~l~~~~~--~~~----~~~~~iitD~~~~ 239 (454)
...++.+.++.+++.+| .+++.+++ .-+.+.|..+|+.+...+. .+. ..+.+|+.|..+.
T Consensus 185 ~~~~~~~~v~~~~~~~g---~~~~~~~~~~~~~~~~~y~~~L~~~~~~~~~~~p~~~~~~~~~~~~~Dna~~ 253 (345)
T 3hot_A 185 NRFGKKTMLCVWWDQSG---VIYYELLKPGETVNAARYQQQLINLNRALQRKRPEYQKRQHRVIFLHDNAPS 253 (345)
T ss_dssp CTTCCEEEEEEEEESSS---EEEEEEECSSCCCCHHHHHHHHHHHHHHHHHHSTTCC---CCCEEECCCCTT
T ss_pred cCcCCcEEEEEEEcccC---ceeeEecCCCCcccHHHHHHHHHHHHHHHHHhchhhhcCCCceEEEECCCCc
Confidence 34556777778888877 56777776 5677788888877654431 011 3467899998763
No 4
>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=88.27 E-value=2.1 Score=35.64 Aligned_cols=65 Identities=15% Similarity=0.182 Sum_probs=45.7
Q ss_pred ccEEEEeCeeecCCCCcceEEEEEEeCCCCeEEEEEEEeecccchhHHHHHHHHHhhccccCCCcEEEEcCCcchHH
Q 043258 165 RGILAVDGWEINNPCNSVMLVAAGLDGNNGILPVAFCEVQVEDLDSWVYFLKNINSALRLENGKGLCILGDGDNGVE 241 (454)
Q Consensus 165 ~~vi~~D~t~~~~~y~~~l~~~~g~d~~~~~~~la~al~~~E~~e~~~w~l~~l~~~~~~~~~~~~~iitD~~~~l~ 241 (454)
..++.+|.|+..+ .++++.+|...+.. .++.+ .+++.+.-..+|..+....+ +..|.||+.....
T Consensus 9 ~~~w~~D~t~~~g-----~y~~~~iD~~sr~~-~~~~~-~~~~~~~~~~~l~~~~~~~~-----~~~i~sD~G~~f~ 73 (163)
T 3l3u_A 9 PGIWQLDCTHLEG-----KVILVAVHVASGYI-EAEVI-PAETGQETAYFLLKLAGRWP-----VKTVHTDNGSNFT 73 (163)
T ss_dssp TTEEEEEEEEETT-----EEEEEEEETTTCCE-EEEEE-SSCCHHHHHHHHHHHHHHSC-----CCEEEECCCGGGG
T ss_pred CCEEEEEecccCC-----cEEEEEEecCCCcE-EEEEe-CCCcHHHHHHHHHHHHHHcC-----CcEEeecChHhhh
Confidence 3578899999854 26778888877655 55555 56677777777766666652 3689999998653
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=87.29 E-value=3 Score=34.74 Aligned_cols=69 Identities=12% Similarity=-0.108 Sum_probs=46.5
Q ss_pred cEEEEeCeeecCCCCcceEEEEEEeCCCCeEEEEEEEeecccchhHHHHHHHHHhhccccCCCcEEEEcCCcchHH
Q 043258 166 GILAVDGWEINNPCNSVMLVAAGLDGNNGILPVAFCEVQVEDLDSWVYFLKNINSALRLENGKGLCILGDGDNGVE 241 (454)
Q Consensus 166 ~vi~~D~t~~~~~y~~~l~~~~g~d~~~~~~~la~al~~~E~~e~~~w~l~~l~~~~~~~~~~~~~iitD~~~~l~ 241 (454)
.++.+|-++.... +|..+.++.+|...+. ++++.+- +++.+.-..+|+.+....+ .|..|.||++....
T Consensus 12 ~~~~~D~~~~~~~-~g~~yl~~~iD~~Sr~-i~~~~~~-~~~~~~v~~~l~~~~~~~g----~p~~i~sDnG~~f~ 80 (162)
T 1cxq_A 12 QIWQTDFTLEPRM-APRSWLAVTVDTASSA-IVVTQHG-RVTSVAAQHHWATAIAVLG----RPKAIKTDNGSCFT 80 (162)
T ss_dssp CEEEEEEEECGGG-TTSCEEEEEEETTTCC-EEEEEES-SCCHHHHHHHHHHHHHHHC----CCSEEECCSCHHHH
T ss_pred CEEEeeeeecccC-CCCEEEEEEEEcCCCe-EEEEECC-CccHHHHHHHHHHHHHHHC----CCeEEEeCCchhhh
Confidence 4788998886543 4556777888877654 4556665 6666666566666555542 36699999998764
No 6
>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=84.62 E-value=4.6 Score=36.24 Aligned_cols=70 Identities=11% Similarity=-0.111 Sum_probs=48.6
Q ss_pred cEEEEeCeeecCCCCcceEEEEEEeCCCCeEEEEEEEeecccchhHHHHHHHHHhhccccCCCcEEEEcCCcchHHH
Q 043258 166 GILAVDGWEINNPCNSVMLVAAGLDGNNGILPVAFCEVQVEDLDSWVYFLKNINSALRLENGKGLCILGDGDNGVEY 242 (454)
Q Consensus 166 ~vi~~D~t~~~~~y~~~l~~~~g~d~~~~~~~la~al~~~E~~e~~~w~l~~l~~~~~~~~~~~~~iitD~~~~l~~ 242 (454)
.++.+|.|+.... ++..++++.+|...+. ++++.+- +++.+.-..+|+.+....+ .|..|.||+.....+
T Consensus 11 ~~w~~D~~~~~~~-~g~~yl~~~iD~~Sr~-i~~~~~~-~~~~~~v~~~l~~~~~~~g----~p~~i~sDnG~~f~s 80 (238)
T 1c0m_A 11 QIWQTDFTLEPRM-APRSWLAVTVDTASSA-IVVTQHG-RVTSVAVQHHWATAIAVLG----RPKAIKTDNGSCFTS 80 (238)
T ss_dssp SEEEEEEEECGGG-CSSCEEEEEEETTTCC-EEEEEES-SCCHHHHHHHHHHHHHHHC----CCSEEEECSCHHHHS
T ss_pred CEEEEeecccccc-CCCEEEEEEEECCCCC-EEEEEcc-CCCHHHHHHHHHHHHHHhC----CCcEEEECCCCcccc
Confidence 5788999987643 4456677778876544 4566665 7777777777776666552 367999999987543
No 7
>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=82.09 E-value=6.4 Score=33.85 Aligned_cols=68 Identities=13% Similarity=0.076 Sum_probs=43.8
Q ss_pred cEEEEeC-eeecCCCCcceEEEEEEeCCCCeEEEEEEEeecccchhHHHHHHHHHhhccccCCCcEEEEcCCcchHH
Q 043258 166 GILAVDG-WEINNPCNSVMLVAAGLDGNNGILPVAFCEVQVEDLDSWVYFLKNINSALRLENGKGLCILGDGDNGVE 241 (454)
Q Consensus 166 ~vi~~D~-t~~~~~y~~~l~~~~g~d~~~~~~~la~al~~~E~~e~~~w~l~~l~~~~~~~~~~~~~iitD~~~~l~ 241 (454)
.++.+|- ++.... +|..++++.+|..-+.. +++.+ .+.+.+...-+|+.+ .. .+.|..|.||++....
T Consensus 14 ~~~~~D~~~~~~~~-~g~~y~~~~iD~~Sr~~-~~~~~-~~~~~~~~~~~l~~~---~~--~g~p~~i~sDnG~~f~ 82 (200)
T 2x78_A 14 DKFFIDYIGPLPPS-QGYLYVLVVVDGMTGFT-WLYPT-KAPSTSATVKSLNVL---TS--IAIPRVIHSDQGAAFT 82 (200)
T ss_dssp SEEEEEEECCCSCB-TTBCEEEEEEETTTCCE-EEEEE-SSSCHHHHHHHHHHH---TT--TCCCSEEEECSCHHHH
T ss_pred cEEEEEEeCCCccC-CCCeEEEEEEeCCCCcE-EEEEC-CCCCHHHHHHHHHHH---HH--hCCCcEEEecCCccee
Confidence 4678886 444433 56778888888776654 55655 666666655555433 32 3467899999987653
No 8
>3f9k_A Integrase; protein-protein complex, AIDS, DNA integration, endonuclease magnesium, metal-binding, multifunctional enzyme; 3.20A {Human immunodeficiency virus type 2} PDB: 1e0e_A
Probab=79.72 E-value=13 Score=32.28 Aligned_cols=63 Identities=14% Similarity=0.120 Sum_probs=42.1
Q ss_pred cEEEEeCeeecCCCCcceEEEEEEeCCCCeEEEEEEEeecccchhHHHHHHHHHhhccccCCCcEEEEcCCcchH
Q 043258 166 GILAVDGWEINNPCNSVMLVAAGLDGNNGILPVAFCEVQVEDLDSWVYFLKNINSALRLENGKGLCILGDGDNGV 240 (454)
Q Consensus 166 ~vi~~D~t~~~~~y~~~l~~~~g~d~~~~~~~la~al~~~E~~e~~~w~l~~l~~~~~~~~~~~~~iitD~~~~l 240 (454)
.++.+|-|+..++ ++++.+|..-+ ++.++.+ .+++.+...-+|..+....+ .| .|.||++...
T Consensus 60 ~~w~~D~~~~~~~-----y~l~~vD~~sr-~~~~~~~-~~~~~~~~~~~l~~~~~~~g----~~-~i~sDnG~~F 122 (210)
T 3f9k_A 60 GTWQMDCTHLEGK-----IIIVAVHVASG-FIEAEVI-PQESGRQTALFLLKLASRWP----IT-HLHTDNGANF 122 (210)
T ss_dssp TEEEEEEEEETTE-----EEEEEEETTTT-EEEEEEE-SSCCHHHHHHHHHHHHTTSC----CS-EEEECCCTTT
T ss_pred CeEeEeecccCCe-----EEEEEEEcCCC-cEEEEEe-CCcchHHHHHHHHHHHHHcC----CC-EEEeCCCchh
Confidence 4778998887543 46777887766 4555554 44677777766666555552 24 4999999864
No 9
>1q1v_A DEK protein; winged-helix motif, DNA binding protein; NMR {Homo sapiens} SCOP: a.159.4.1
Probab=79.18 E-value=10 Score=27.03 Aligned_cols=44 Identities=11% Similarity=0.210 Sum_probs=36.3
Q ss_pred ccch-HHHHHHHhhhhcc-C-CCCCHHHHHHHHHHHh-CCccCHHHHH
Q 043258 51 HPAS-KWISAMFLHRWKE-Q-PSISTTEVRNEIESMY-GIKCPEWKVF 94 (454)
Q Consensus 51 ~~~s-~~i~~~~~~~~~~-~-~~~~~~~i~~~l~~~~-g~~~s~~~~~ 94 (454)
..++ .-|...+.++|++ + .+++.++|.+.|.+.+ |++++..+.+
T Consensus 10 ~~Psd~ei~~~I~~IL~~aDL~tvT~K~VR~~Le~~~pg~dLs~kK~~ 57 (70)
T 1q1v_A 10 KPPTDEELKETIKKLLASANLEEVTMKQICKKVYENYPTYDLTERKDF 57 (70)
T ss_dssp CCCCHHHHHHHHHHHHTTSCGGGCCHHHHHHHHHHHCSSSCCSHHHHH
T ss_pred CCcCHHHHHHHHHHHHHhCCHHHHhHHHHHHHHHHHccCCCChHHHHH
Confidence 3677 7788889999986 4 3789999999999999 9999976543
No 10
>3kks_A Integrase, IN; beta-strands flanked by alpha-helices, DNA binding protein; 2.20A {Bovine immunodeficiency virus} PDB: 3kkr_A
Probab=74.77 E-value=11 Score=30.49 Aligned_cols=65 Identities=12% Similarity=0.101 Sum_probs=46.6
Q ss_pred cEEEEeCeeecCCCCcceEEEEEEeCCCCeEEEEEEEeecccchhHHHHHHHHHhhccccCCCcEEEEcCCcchHHH
Q 043258 166 GILAVDGWEINNPCNSVMLVAAGLDGNNGILPVAFCEVQVEDLDSWVYFLKNINSALRLENGKGLCILGDGDNGVEY 242 (454)
Q Consensus 166 ~vi~~D~t~~~~~y~~~l~~~~g~d~~~~~~~la~al~~~E~~e~~~w~l~~l~~~~~~~~~~~~~iitD~~~~l~~ 242 (454)
.++.+|.|+..+ .++++.+|...+.. +++.+ .+++.+...-+|..+.... + |..|.||++....+
T Consensus 3 ~~w~~D~t~~~~-----~y~~~~iD~~sr~~-~~~~~-~~~~~~~~~~~l~~~~~~~---g--p~~i~sDnG~~f~s 67 (152)
T 3kks_A 3 HLWQMDNTHWNK-----TIIWVAVETNSGLV-EAQVI-PEETALQVALCILQLIQRY---T--VLHLHSDNGPCFTA 67 (152)
T ss_dssp CEEEEEEEEETT-----EEEEEEEETTTCCE-EEEEE-SSSCHHHHHHHHHHHHHHS---C--CSEEEECSCHHHHS
T ss_pred cEEEEeeeeeCC-----EEEEEEEEcCCCcE-EEEEe-CCcCHHHHHHHHHHHHHHh---C--CcEEecCCchHhhH
Confidence 467899998832 36777888776655 55555 4777777777776666665 3 88999999987654
No 11
>1c6v_A Protein (SIV integrase); DNA integration, DNA binding protein; 3.00A {Simian immunodeficiency virus} SCOP: c.55.3.2
Probab=73.82 E-value=9.5 Score=31.22 Aligned_cols=63 Identities=14% Similarity=0.087 Sum_probs=39.6
Q ss_pred cEEEEeCeeecCCCCcceEEEEEEeCCCCeEEEEEEEeecccchhHHHHHHHHHhhccccCCCcEEEEcCCcchH
Q 043258 166 GILAVDGWEINNPCNSVMLVAAGLDGNNGILPVAFCEVQVEDLDSWVYFLKNINSALRLENGKGLCILGDGDNGV 240 (454)
Q Consensus 166 ~vi~~D~t~~~~~y~~~l~~~~g~d~~~~~~~la~al~~~E~~e~~~w~l~~l~~~~~~~~~~~~~iitD~~~~l 240 (454)
.++.+|.++. +|. +.++.+|..-+. ++++.+ .+++.+...-++..+.... +|..|.||.....
T Consensus 10 ~~w~~D~~~~----~g~-~~l~~iD~~Sr~-~~~~~~-~~~~~~~~~~~~~~~~~~~-----~~~~i~sDnG~~f 72 (164)
T 1c6v_A 10 GTWQMDCTHL----EGK-IVIVAVHVASGF-IEAEVI-PQETGRQTALFLLKLAGRW-----PITHLHTDNGANF 72 (164)
T ss_dssp TEEEEEEEEE----TTE-EEEEEECTTSCC-EEEEEC-SSCSHHHHHHHHHHHHTTS-----CCCEEECCCCSST
T ss_pred CEEEEeeccc----CCE-EEEEEEEccCCE-EEEEEc-CCCchHHHHHHHHHHHHhc-----CCCEEEeCCchhh
Confidence 4788998888 344 344458876654 455544 4566666665555544433 3688999998764
No 12
>1k6y_A Integrase; HIV-1, domain organization, transferase; 2.40A {Human immunodeficiency virus 1} SCOP: a.4.10.1 c.55.3.2 PDB: 1wjb_A 1wjd_A 1wjf_A 1wja_A 1wjc_A 1wje_A
Probab=69.37 E-value=38 Score=29.08 Aligned_cols=64 Identities=16% Similarity=0.157 Sum_probs=37.8
Q ss_pred ccEEEEeCeeecCCCCcceEEEEEEeCCCCeEEEEEEEeecccchhHHHHHHHHHhhccccCCCcEEEEcCCcchH
Q 043258 165 RGILAVDGWEINNPCNSVMLVAAGLDGNNGILPVAFCEVQVEDLDSWVYFLKNINSALRLENGKGLCILGDGDNGV 240 (454)
Q Consensus 165 ~~vi~~D~t~~~~~y~~~l~~~~g~d~~~~~~~la~al~~~E~~e~~~w~l~~l~~~~~~~~~~~~~iitD~~~~l 240 (454)
..++.+|.++.. +. +.++.+|..-+. ++++.+ .+.+.+...-++..+.... ++..|.||++...
T Consensus 58 ~~~w~~D~~~~~----~~-~~l~~vD~~Sr~-~~~~~~-~~~~~~~~~~~~~~~~~~~-----~~~~i~sDnG~~f 121 (212)
T 1k6y_A 58 PGIWQLDCTHLE----GK-VILVAVHVASGY-IEAEVI-PAETGQETAYFLLKLAGRW-----PVKTVHTDNGSNF 121 (212)
T ss_dssp TTEEEEEEEEET----TE-EEEEEEETTTTE-EEEEEE-SSCCHHHHHHHHHHHHHHS-----CCCEEECCCSTTT
T ss_pred CCeeeEEEecCC----Ce-EEEEEEEccCCc-EEEEEe-cCcchHHHHHHHHHHHHhc-----CCeEEEcCCCccc
Confidence 357788988872 22 345555665544 444544 4455555555554454444 2378999999864
No 13
>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=67.29 E-value=28 Score=30.82 Aligned_cols=64 Identities=17% Similarity=0.161 Sum_probs=38.7
Q ss_pred cEEEEeCeeecCCCCcceEEEEEEeCCCCeEEEEEEEeecccchhHHHHHHHHHhhccccCCCcEEEEcCCcchHH
Q 043258 166 GILAVDGWEINNPCNSVMLVAAGLDGNNGILPVAFCEVQVEDLDSWVYFLKNINSALRLENGKGLCILGDGDNGVE 241 (454)
Q Consensus 166 ~vi~~D~t~~~~~y~~~l~~~~g~d~~~~~~~la~al~~~E~~e~~~w~l~~l~~~~~~~~~~~~~iitD~~~~l~ 241 (454)
.++.+|.|+.. +. +.++.+|..-+ +++++.+- +++.+...-++..+.... ++..|.||......
T Consensus 10 ~~w~~D~t~~~----g~-~~l~~vD~~Sr-~i~~~~~~-~~~~~~~~~~~~~~~~~~-----~~~~i~sDnG~eF~ 73 (239)
T 1ex4_A 10 GIWQLDCTHLE----GK-VILVAVHVASG-YIEAEVIP-AETGQETAYFLLKLAGRW-----PVKTIHTDNGSNFT 73 (239)
T ss_dssp GEEEEEEEEET----TE-EEEEEECTTTC-CEEEECCS-SSSTTHHHHHHHHHHHHS-----CCCEEEECCCHHHH
T ss_pred CEEEEeccccC----Ce-EEEEEEECCCC-eEEEEEeC-CCCHHHHHHHHHHHHHhc-----CCcEEEecCcHHHH
Confidence 48899999982 22 34455565444 45666544 455555554444444443 25889999998754
No 14
>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=66.61 E-value=11 Score=31.93 Aligned_cols=65 Identities=15% Similarity=0.182 Sum_probs=39.3
Q ss_pred ccEEEEeCeeecCCCCcceEEEEEEeCCCCeEEEEEEEeecccchhHHHHHHHHHhhccccCCCcEEEEcCCcchHH
Q 043258 165 RGILAVDGWEINNPCNSVMLVAAGLDGNNGILPVAFCEVQVEDLDSWVYFLKNINSALRLENGKGLCILGDGDNGVE 241 (454)
Q Consensus 165 ~~vi~~D~t~~~~~y~~~l~~~~g~d~~~~~~~la~al~~~E~~e~~~w~l~~l~~~~~~~~~~~~~iitD~~~~l~ 241 (454)
..++.+|.++.. |. +.++.+|..-+.+ +++.+ .+++.+.-..++..+.... ++..|.||+.....
T Consensus 29 ~~~w~~D~~~~~----g~-~~l~~vD~~Sr~~-~~~~~-~~~~~~~~~~~~~~~~~~~-----~~~~i~sDnG~ef~ 93 (183)
T 3av9_A 29 PGIWQLDCTHLE----GK-VILVAVHVASGYI-EAEVI-PAETGQETAYFLLKLAGRW-----PVKTVHTDNGSNFT 93 (183)
T ss_dssp TTEEEEEEEEET----TE-EEEEEEETTTTEE-EEEEE-SSCCHHHHHHHHHHHHHHS-----CCCEEECSSHHHHH
T ss_pred CCEEEEeccccC----Cc-EEEEEEECCCCCE-EEEEe-CCccchHHHHHHHHHHHHc-----CCcEEEecCchhcc
Confidence 457889988873 32 2445557666655 66654 4455555554444444444 23789999988653
No 15
>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=55.29 E-value=31 Score=29.88 Aligned_cols=66 Identities=12% Similarity=0.057 Sum_probs=45.0
Q ss_pred cEEEEeCeeecCCCCcceEEEEEEeCCCCeEEEEEEEeecccchhHHHHHHHHHhhccccCCCcEEEEcCCcchHHHH
Q 043258 166 GILAVDGWEINNPCNSVMLVAAGLDGNNGILPVAFCEVQVEDLDSWVYFLKNINSALRLENGKGLCILGDGDNGVEYA 243 (454)
Q Consensus 166 ~vi~~D~t~~~~~y~~~l~~~~g~d~~~~~~~la~al~~~E~~e~~~w~l~~l~~~~~~~~~~~~~iitD~~~~l~~A 243 (454)
.++.+|-|+..+ -++++.+|..-+.. .++. +.+++.+...-+|..+.... + |..|.||++....+.
T Consensus 61 ~~w~~D~t~~~~-----~y~~~~iD~~Sr~~-~~~~-~~~~~~~~~~~~l~~~~~~~---g--p~~i~sDnG~~F~s~ 126 (219)
T 3hph_A 61 DHWQVDYTHYED-----KIILVWVETNSGLI-YAER-VKGETGQEFRVQTMKWYAMF---A--PKSLQSDNGPAFVAE 126 (219)
T ss_dssp CEEEEEEEEETT-----EEEEEEEETTTCCE-EEEE-ESCCCHHHHHHHHHHHHHHH---C--CCEEEECCCHHHHSH
T ss_pred ceEEEEEecCCC-----EEEEEEEeCCCCcE-EEEE-eCCCCHHHHHHHHHHHHHHh---C--CcEEEeCCCchhhhH
Confidence 467788887643 26778888877766 5554 45666666666666665555 3 789999999876543
No 16
>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=54.42 E-value=28 Score=32.66 Aligned_cols=72 Identities=15% Similarity=-0.018 Sum_probs=50.3
Q ss_pred ccEEEEeCeeecCC---CCc---ceEEEEEEeCCCCeEEEEEEEeecccchhHHHHHHHHHhhccccCCCcE--EEEcCC
Q 043258 165 RGILAVDGWEINNP---CNS---VMLVAAGLDGNNGILPVAFCEVQVEDLDSWVYFLKNINSALRLENGKGL--CILGDG 236 (454)
Q Consensus 165 ~~vi~~D~t~~~~~---y~~---~l~~~~g~d~~~~~~~la~al~~~E~~e~~~w~l~~l~~~~~~~~~~~~--~iitD~ 236 (454)
..++.+|+|+.... .+| ...+.+.+|...+. ++|+.+..+|+.++..-.|.......+ .|. .|.+|.
T Consensus 16 ~~~w~~D~t~~d~~~~~~~g~~~r~~l~~~iD~~SR~-ivg~~~~~~~~~~~v~~aL~~a~~~~G----~P~~~~i~sDn 90 (327)
T 1bco_A 16 MQWINGDGYLHNVFVRWFNGDVIRPKTWFWQDVKTRK-ILGWRCDVSENIDSIRLSFMDVVTRYG----IPEDFHITIDN 90 (327)
T ss_dssp TTEEEEEEEECSBCEECTTSCEECCEEEEEEETTTCC-EEEEEEESSCCHHHHHHHHHHHHHHHC----EESSCEEECCC
T ss_pred CcEEEecCCEEEEEEECCCCccceeEEEEEEECCCCc-EEEEEEECCCCHHHHHHHHHHHHHhcC----CCCCcEEEeeC
Confidence 45888999876543 123 45667778876554 588999888888887777766655542 355 899999
Q ss_pred cchHH
Q 043258 237 DNGVE 241 (454)
Q Consensus 237 ~~~l~ 241 (454)
..+..
T Consensus 91 G~~f~ 95 (327)
T 1bco_A 91 TRGAA 95 (327)
T ss_dssp TTSTT
T ss_pred chhhc
Confidence 98654
No 17
>2l0z_A Glycoprotein G2; zinc-binding domain, virus envelope glycoprotein, GPC, junin arenavirus, viral protein; NMR {Junin virus}
Probab=45.69 E-value=7.9 Score=24.13 Aligned_cols=15 Identities=27% Similarity=0.587 Sum_probs=13.2
Q ss_pred cceeecCCcccCCCC
Q 043258 391 AMSCSCGLWQISGIP 405 (454)
Q Consensus 391 ~~~CsC~~~~~~giP 405 (454)
...|+|+.|...|.|
T Consensus 21 ~~~C~CG~y~~~~kp 35 (42)
T 2l0z_A 21 LGGCRCGKYPNLKKP 35 (42)
T ss_dssp TSSBTTTTBCCCCCC
T ss_pred CceeccccccCCCCc
Confidence 467999999999987
No 18
>2bw3_A Transposase; DNA recombination, transposition; 2.0A {Musca domestica} SCOP: a.270.1.1 c.55.3.12 PDB: 2bw3_B
Probab=45.64 E-value=84 Score=31.42 Aligned_cols=70 Identities=13% Similarity=0.189 Sum_probs=47.0
Q ss_pred CeEEEEEEEeec--ccchhHHHHHHHHHhhccccCCCcEEEEcCCcchHHHHHhhhcCCccccccHHHHHHhHHhh
Q 043258 194 GILPVAFCEVQV--EDLDSWVYFLKNINSALRLENGKGLCILGDGDNGVEYAVEEFLPRAVYRQCCHRIFNEMVRR 267 (454)
Q Consensus 194 ~~~~la~al~~~--E~~e~~~w~l~~l~~~~~~~~~~~~~iitD~~~~l~~Ai~~vfP~a~~~~C~~Hi~~n~~~~ 267 (454)
+..+|++.-++. .+.++....+..+.+..++.....+.++||....+..|++.. .|..|..|.+.-+.+.
T Consensus 130 ~~~~L~~~~~~~~~~t~~~i~~~i~~~l~~~~l~~~~~v~~vtDnasn~~~~~~~~----~~i~C~~H~lnLi~~~ 201 (534)
T 2bw3_A 130 RDLILGLKSLDFERSTAENIYKKLKAIFSQFNVEDLSSIKFVTDRGANVVKSLANN----IRINCSSHLLSNVLEN 201 (534)
T ss_dssp EEEEEEEEEECGGGCSHHHHHHHHHHHHHTTTCCCCTTCEEEECCCHHHHHHTTTS----EEEECHHHHHHHHHHH
T ss_pred EEEEEeEeecCCCCCCHHHHHHHHHHHHHHcCCCcccceeEECCCHHHHHHHHhcC----cccccHHHHHHHHHHH
Confidence 345677766663 555665555555544444333346678999999888887753 5889999999877654
No 19
>2ahq_A Sigma-54, RNA polymerase sigma factor RPON; sigma-54,sigma factors, solution structure, transcription; NMR {Aquifex aeolicus} PDB: 2o8k_A 2o9l_A
Probab=44.45 E-value=31 Score=24.93 Aligned_cols=45 Identities=13% Similarity=0.076 Sum_probs=35.1
Q ss_pred HHHHHHHhhhhcc-CCC--CCHHHHHHHHHHHhCCccCHHHHHHHHHHH
Q 043258 55 KWISAMFLHRWKE-QPS--ISTTEVRNEIESMYGIKCPEWKVFCAANRA 100 (454)
Q Consensus 55 ~~i~~~~~~~~~~-~~~--~~~~~i~~~l~~~~g~~~s~~~~~rak~~~ 100 (454)
.-|...+++.|.+ ++. ++-.+|.+.|+++ |+.++..++.+.|+.+
T Consensus 19 ~~Ik~~Ik~lI~~Ed~~kPlSD~~I~~~L~~~-Gi~IaRRTVaKYRe~l 66 (76)
T 2ahq_A 19 GELMKLIKEIVENEDKRKPYSDQEIANILKEK-GFKVARRTVAKYREML 66 (76)
T ss_dssp HHHHHHHHHHGGGCCSSSCCCHHHHHHHHTTT-SSCCCHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHc-CCCccHHHHHHHHHHc
Confidence 5677788888876 443 7779999999766 9999999998777653
No 20
>3oym_A PFV integrase, P42IN; protein-DNA complex; HET: DNA; 2.02A {Human spumaretrovirus} PDB: 3oyn_A* 3s3o_A* 4be2_A* 3l2q_A 3l2s_A 3l2r_A* 3l2u_A* 3l2v_A* 3l2w_A* 3l2t_A* 3os1_A* 3os2_A* 3os0_A* 3oya_A* 3oy9_A* 3oyc_A* 3oyd_A* 3oye_A* 3oyb_A* 3oyg_A* ...
Probab=44.44 E-value=59 Score=31.01 Aligned_cols=69 Identities=14% Similarity=0.089 Sum_probs=43.1
Q ss_pred cEEEEeCeeecCCCCcceEEEEEEeCCCCeEEEEEEEeecccchhHHHHHHHHHhhccccCCCcEEEEcCCcchHH
Q 043258 166 GILAVDGWEINNPCNSVMLVAAGLDGNNGILPVAFCEVQVEDLDSWVYFLKNINSALRLENGKGLCILGDGDNGVE 241 (454)
Q Consensus 166 ~vi~~D~t~~~~~y~~~l~~~~g~d~~~~~~~la~al~~~E~~e~~~w~l~~l~~~~~~~~~~~~~iitD~~~~l~ 241 (454)
.++.+|-+.-....+|..++++.+|..-+. +.++.+-. .+.+.-..+|..+. . .+.|..|+||++....
T Consensus 126 ~~~~~D~~~~~~~~~g~~y~l~~vD~~sr~-~~~~~~~~-~~~~~~~~~l~~~~-~----~g~p~~i~sDnG~~f~ 194 (395)
T 3oym_A 126 DKFFIDYIGPLPPSQGYLYVLVVVDGMTGF-TWLYPTKA-PSTSATVKSLNVLT-S----IAIPKVIHSDQGAAFT 194 (395)
T ss_dssp SEEEEEEECCCSCBTTBCEEEEEEETTTCC-EEEEEESS-SCHHHHHHHHHHHT-T----TCCCSEEEECSCHHHH
T ss_pred eEEEEEEecccCCCCCccEEEEEEecCCce-EEEEEecC-CcHHHHHHHhhHhh-c----cCCceEEEeCCCCcee
Confidence 478888665333346778888888887655 45555544 44444444443222 2 3457899999998764
No 21
>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=43.41 E-value=20 Score=26.50 Aligned_cols=34 Identities=21% Similarity=0.156 Sum_probs=23.0
Q ss_pred EEEEEecc---CCCccEEEEEEeCCCCeEEEEEecCCcccCCCC
Q 043258 7 IVSCECSD---LSCDWQVTAIRDVRGKGFVITQFSPKHNCPRLD 47 (454)
Q Consensus 7 r~~~~C~~---~gC~~~v~~~~~~~~~~~~v~~~~~~Hnc~~~~ 47 (454)
+.--+|+. .+|++++.... + . | .....|||++..
T Consensus 39 ~~yWrC~~~~~~kCrARi~T~~---~-~--~-~~~~~HnH~p~~ 75 (87)
T 2rpr_A 39 KVYWMCRDQARLGCRSRAITQG---H-R--I-MVMRSHCHQPDL 75 (87)
T ss_dssp CEEEEEGGGTTSCCCCEEEEET---T-E--E-EECSCCSSCCCH
T ss_pred cEEEEecCCCCCCCCEEEEEcC---C-C--E-ECCCCcCCCCch
Confidence 34477885 48999988764 2 2 3 246789997654
No 22
>1pdn_C Protein (PRD paired); protein-DNA complex, double helix, PAX, paired domain, DNA-binding protein, gene regulation/DNA complex; HET: DNA; 2.50A {Drosophila melanogaster} SCOP: a.4.1.5
Probab=43.12 E-value=32 Score=26.59 Aligned_cols=39 Identities=10% Similarity=0.085 Sum_probs=30.2
Q ss_pred HHHHhhhhccCCCCCHHHHHHHHHHHhCC-----ccCHHHHHHHH
Q 043258 58 SAMFLHRWKEQPSISTTEVRNEIESMYGI-----KCPEWKVFCAA 97 (454)
Q Consensus 58 ~~~~~~~~~~~~~~~~~~i~~~l~~~~g~-----~~s~~~~~rak 97 (454)
.+.+.+.+..++.+++.+|...+.+. |+ .+|+.+++|.-
T Consensus 81 ~~~i~~~~~~~~~~s~~~i~~~l~~~-g~~~~~~~~s~~tv~r~l 124 (128)
T 1pdn_C 81 ENRIEEYKRSSPGMFSWEIREKLIRE-GVCDRSTAPSVSAISRLV 124 (128)
T ss_dssp HHHHHHTTTTCTTCCHHHHHHHHHHT-SSSCSTTCCCHHHHHHHC
T ss_pred HHHHHHHHHhCcchHHHHHHHHHHHc-CCccccCCcCHHHHHHHH
Confidence 34455566678889999999999765 88 69999998763
No 23
>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=39.50 E-value=32 Score=27.25 Aligned_cols=42 Identities=19% Similarity=0.329 Sum_probs=32.3
Q ss_pred HHHHHhhccccCCCcEEEEcCCcch---HHHHHhhhcCCccccccHHH
Q 043258 215 LKNINSALRLENGKGLCILGDGDNG---VEYAVEEFLPRAVYRQCCHR 259 (454)
Q Consensus 215 l~~l~~~~~~~~~~~~~iitD~~~~---l~~Ai~~vfP~a~~~~C~~H 259 (454)
++.+++.. ....+.++||.|.+ |.+-|.+.+|++.|.+-...
T Consensus 41 l~~I~~~~---~~r~VIi~TD~D~~GekIRk~i~~~lp~~~hafi~r~ 85 (119)
T 2fcj_A 41 LEELADEL---EGYDVYLLADADEAGEKLRRQFRRMFPEAEHLYIDRA 85 (119)
T ss_dssp HHHHHHHT---TTSEEEEECCSSHHHHHHHHHHHHHCTTSEEECCCTT
T ss_pred HHHHHHHh---cCCCEEEEECCCccHHHHHHHHHHHCCCCcEEeccCC
Confidence 44555554 56789999999975 88889999999998876443
No 24
>2p5k_A Arginine repressor; DNA-binding domain, winged helix-turn-helix (WHTH), DNA binding protein; 1.00A {Bacillus subtilis} SCOP: a.4.5.3 PDB: 2p5l_C*
Probab=39.31 E-value=50 Score=22.08 Aligned_cols=35 Identities=11% Similarity=0.042 Sum_probs=27.5
Q ss_pred hhhccCCCCCHHHHHHHHHHHhCCccCHHHHHHHHH
Q 043258 63 HRWKEQPSISTTEVRNEIESMYGIKCPEWKVFCAAN 98 (454)
Q Consensus 63 ~~~~~~~~~~~~~i~~~l~~~~g~~~s~~~~~rak~ 98 (454)
..+..++.++..+|.+.+++ .|..+|..++||.-+
T Consensus 12 ~ll~~~~~~t~~el~~~l~~-~~~~vs~~Tv~R~L~ 46 (64)
T 2p5k_A 12 EIITSNEIETQDELVDMLKQ-DGYKVTQATVSRDIK 46 (64)
T ss_dssp HHHHHSCCCSHHHHHHHHHH-TTCCCCHHHHHHHHH
T ss_pred HHHHcCCCCCHHHHHHHHHH-hCCCcCHHHHHHHHH
Confidence 34555678899999999965 488899999997644
No 25
>1yb3_A Hypothetical protein; structural genomics, protein structure initiative, PSI; 1.60A {Pyrococcus furiosus} SCOP: d.296.1.2
Probab=38.30 E-value=1.1e+02 Score=25.37 Aligned_cols=68 Identities=15% Similarity=0.054 Sum_probs=45.5
Q ss_pred HHHHHHHHHHhhCCCcEEE-EEecccccccccceeEEEEeecchHHHHHhhcccEEEEeCeeecCCCCcceEEE-----E
Q 043258 114 MLHQFKEEMERIDRDNIVL-VETETHESREEERFKRVFVCCARTSYAFKVHCRGILAVDGWEINNPCNSVMLVA-----A 187 (454)
Q Consensus 114 ~l~~~~~~l~~~npg~~~~-~~~~~~~~~~~~~f~~~f~~~~~~~~~~~~~~~~vi~~D~t~~~~~y~~~l~~~-----~ 187 (454)
.+...-++|.++-+|+.+. +.- .++-.+.+||-+..-.|--|.+.+ +
T Consensus 24 ~If~l~eEL~~~Lkgfkve~vge---------------------------vf~aY~~~dGeW~~m~YPhPafti~p~gev 76 (175)
T 1yb3_A 24 DIFELREELKEELKGFTVEEVSE---------------------------VFNAYLYIDGKWEEMKYPHPAFAVKPGGEV 76 (175)
T ss_dssp HHHHHHHHHHHHSTTSEECCCEE---------------------------ECSCEEEETTEEEECCSCEEEEEEETTEEE
T ss_pred HHHHHHHHHHHHccCCcceecee---------------------------ecceEEEEcCEEeEccCCcceEEeccccee
Confidence 4445556777777787765 321 367788999999999999998877 4
Q ss_pred EEeCCCCeEEEEEEEeecccchh
Q 043258 188 GLDGNNGILPVAFCEVQVEDLDS 210 (454)
Q Consensus 188 g~d~~~~~~~la~al~~~E~~e~ 210 (454)
|.|. +.+-+-+++...+-..+
T Consensus 77 gat~--~~~yfv~~v~Ke~ls~~ 97 (175)
T 1yb3_A 77 GATP--QGFYFVFAFPKEELSKE 97 (175)
T ss_dssp EEET--TEEEEEEEEEGGGCCHH
T ss_pred eecc--ceEEEEEEecHHHHhHH
Confidence 4444 44555556655444433
No 26
>2k27_A Paired box protein PAX-8; paired domain, solution structure, triple frequency, 3D NMR, induced FIT, alternative splicing, developmental protein; NMR {Homo sapiens}
Probab=35.32 E-value=60 Score=26.55 Aligned_cols=40 Identities=8% Similarity=-0.023 Sum_probs=30.2
Q ss_pred HHHhhhhccCCCCCHHHHHHHHHHHh----CCccCHHHHHHHHH
Q 043258 59 AMFLHRWKEQPSISTTEVRNEIESMY----GIKCPEWKVFCAAN 98 (454)
Q Consensus 59 ~~~~~~~~~~~~~~~~~i~~~l~~~~----g~~~s~~~~~rak~ 98 (454)
+.+.+.+..++.+++.+|...+.+.. |+.+|+.+++|.-.
T Consensus 90 ~~I~~~~~~~~~~s~~~i~~~l~~~~~~~~~~~~S~sTV~r~L~ 133 (159)
T 2k27_A 90 EKIGDYKRQNPTMFAWEIRDRLLAEGVCDNDTVPSVSSINRIIR 133 (159)
T ss_dssp HHHHHHHHHCSSSCHHHHHHHHHHHTCSCTTTSCCHHHHHHHHH
T ss_pred HHHHHHHHHCccchHHHHHHHHHHhcccccCCccCHHHHHHHHH
Confidence 34455556678899999999887665 67899999987643
No 27
>1k78_A Paired box protein PAX5; paired domain, ETS domain, transcription factor, transcription/DNA complex; 2.25A {Homo sapiens} SCOP: a.4.1.5 a.4.1.5 PDB: 1mdm_A 6pax_A
Probab=34.26 E-value=45 Score=26.91 Aligned_cols=39 Identities=8% Similarity=0.020 Sum_probs=28.3
Q ss_pred HHHhhhhccCCCCCHHHHHHHHHHHh----CCccCHHHHHHHH
Q 043258 59 AMFLHRWKEQPSISTTEVRNEIESMY----GIKCPEWKVFCAA 97 (454)
Q Consensus 59 ~~~~~~~~~~~~~~~~~i~~~l~~~~----g~~~s~~~~~rak 97 (454)
+.+.+.+..++..++.+|...+.... |+.+|+.+++|.-
T Consensus 97 ~~I~~~~~~~~~~s~~~i~~~l~~~~~~~~g~~~S~sTV~r~L 139 (149)
T 1k78_A 97 EKIAEYKRQNPTMFAWEIRDRLLAERVCDNDTVPSVSSINRII 139 (149)
T ss_dssp HHHHHHHHHCTTCCHHHHHHHHHHTTSSCTTTSCCHHHHHHHH
T ss_pred HHHHHHHHhCcchhHHHHHHHHHHhcccccCCCcCHHHHHHHH
Confidence 34455556677888888888887665 7788888887653
No 28
>2lsn_A Reverse transcriptase; RNAse H, viral protein; NMR {Simian foamy virus}
Probab=31.82 E-value=1.5e+02 Score=24.57 Aligned_cols=74 Identities=12% Similarity=-0.001 Sum_probs=42.5
Q ss_pred cccEEEEeCeeecCCCC-----cceEEEEEEeCCCCeEEEEEEEeecccchhHH---HHHHHHHhhccccCCCcEEEEcC
Q 043258 164 CRGILAVDGWEINNPCN-----SVMLVAAGLDGNNGILPVAFCEVQVEDLDSWV---YFLKNINSALRLENGKGLCILGD 235 (454)
Q Consensus 164 ~~~vi~~D~t~~~~~y~-----~~l~~~~g~d~~~~~~~la~al~~~E~~e~~~---w~l~~l~~~~~~~~~~~~~iitD 235 (454)
+.-||+.||..+-|... +=.-++++.++....+.-++....+...+.-. -+...+..++ ....++.|.||
T Consensus 6 ~evviYTDGsc~gNpgp~~~~~aG~Gv~~~~~~~~~~~~~~~~~~tnn~te~~Aei~Al~~al~~al--~~~~~v~I~TD 83 (165)
T 2lsn_A 6 YEGVFYTDGSAIKSPDPTKSNNAGMGIVHATYKPEYQVLNQWSIPLGNHTAQMAEIAAVEFACKKAL--KIPGPVLVITD 83 (165)
T ss_dssp CSEEEEEEEEEEECSSCTTCEEEEEEEEEECCSSSCCEEEEEEEEESSCCHHHHHHHHHHHHHHHHH--HSSSCEEEEES
T ss_pred ceEEEEEcCCCCCCCCCCCCCcEEEEEEEEECCCccEEeccccCCchHHHHHHHHHHHHHHHHHHHh--cCCCeEEEEeC
Confidence 34578999999887643 22445555555555555566665554444332 2223333444 24457899999
Q ss_pred Ccch
Q 043258 236 GDNG 239 (454)
Q Consensus 236 ~~~~ 239 (454)
..-.
T Consensus 84 S~Yv 87 (165)
T 2lsn_A 84 SFYV 87 (165)
T ss_dssp CHHH
T ss_pred hHHH
Confidence 7643
No 29
>2qh9_A UPF0215 protein AF_1433; structural genomics, PSI-2, MCSG, PR structure initiative; 1.80A {Archaeoglobus fulgidus}
Probab=31.56 E-value=1.8e+02 Score=24.64 Aligned_cols=66 Identities=14% Similarity=0.121 Sum_probs=48.6
Q ss_pred cEEEEeCeeecCCCCcceEEEEEEeCCCCeEEEEEEEeecccchhHHHHHHHHHhhccccCCC-cEEEEcCCcc
Q 043258 166 GILAVDGWEINNPCNSVMLVAAGLDGNNGILPVAFCEVQVEDLDSWVYFLKNINSALRLENGK-GLCILGDGDN 238 (454)
Q Consensus 166 ~vi~~D~t~~~~~y~~~l~~~~g~d~~~~~~~la~al~~~E~~e~~~w~l~~l~~~~~~~~~~-~~~iitD~~~ 238 (454)
.|+.+|-.|. . +...++.+-++ +....-++++.+.-.-.++..-+++.+++.- ..+ +-+|+.|+.-
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-GGYVEGFLYTEIDIDGLDATDKLISMVRRSK---FREQIKCIFLPGIT 74 (184)
T ss_dssp EEEEEEEEEC--S-SCEEEEEEEEE-TTEEEEEEEEEECTTCSCHHHHHHHHHTTCT---TTTTEEEEEESSSE
T ss_pred EEEEEEcccC--C-CceEEEEEEEE-CCEEEEEEEEEEEECChhHHHHHHHHHHhcC---CCCCCcEEEECCEe
Confidence 5899999997 2 44555555666 8889999999999888999987666654432 222 5889999875
No 30
>2nrr_A Uvrabc system protein C; UVRC, endonuclase, NER, hydrolase; 1.20A {Thermotoga maritima}
Probab=21.86 E-value=1.5e+02 Score=24.71 Aligned_cols=63 Identities=16% Similarity=0.107 Sum_probs=42.1
Q ss_pred cEEEEeCeeecCCCCcceEEEEEEeCCCCeEEEEEEEeecccchhHHHHHHHHHhhccccCCCcEEEEcCCcchHHHHHh
Q 043258 166 GILAVDGWEINNPCNSVMLVAAGLDGNNGILPVAFCEVQVEDLDSWVYFLKNINSALRLENGKGLCILGDGDNGVEYAVE 245 (454)
Q Consensus 166 ~vi~~D~t~~~~~y~~~l~~~~g~d~~~~~~~la~al~~~E~~e~~~w~l~~l~~~~~~~~~~~~~iitD~~~~l~~Ai~ 245 (454)
=|++-||...+..|+--= |-. +..+.|.-.=+.+..+.. ....|-.|+.|+.+|-.+|..
T Consensus 37 mVVf~~g~p~K~~YRrf~------------------I~~-~g~DDya~M~Evl~RR~~-r~~~PDLilIDGGkgQl~aA~ 96 (159)
T 2nrr_A 37 LVVFEDGFPKKGDYRRYK------------------IEQ-DHPDDYESIRTVVKRRYS-KHPLPNLLFVDGGIGQVNAAI 96 (159)
T ss_dssp EEEEETTEECGGGCEEEE------------------C------CHHHHHHHHHHHHHT-TSCCCSEEEESSCHHHHHHHH
T ss_pred EEEEeCCccChhhCceee------------------cCC-CCCCHHHHHHHHHHHHhc-cCCCCCEEEEeCCHHHHHHHH
Confidence 378888888887775321 111 223677777777777763 114688899999999999998
Q ss_pred hhc
Q 043258 246 EFL 248 (454)
Q Consensus 246 ~vf 248 (454)
+++
T Consensus 97 ~vl 99 (159)
T 2nrr_A 97 EAL 99 (159)
T ss_dssp HHH
T ss_pred HHH
Confidence 885
No 31
>1b4a_A Arginine repressor; helix turn helix; 2.50A {Geobacillus stearothermophilus} SCOP: a.4.5.3 d.74.2.1 PDB: 1f9n_A
Probab=21.41 E-value=1.1e+02 Score=25.20 Aligned_cols=39 Identities=8% Similarity=0.020 Sum_probs=31.9
Q ss_pred HHHhhhhccCCCCCHHHHHHHHHHHhCCccCHHHHHHHHH
Q 043258 59 AMFLHRWKEQPSISTTEVRNEIESMYGIKCPEWKVFCAAN 98 (454)
Q Consensus 59 ~~~~~~~~~~~~~~~~~i~~~l~~~~g~~~s~~~~~rak~ 98 (454)
+.+.+.+..++..+-.++.+.|++. |+.+|..+++|--+
T Consensus 8 ~~I~~li~~~~~~tq~eL~~~L~~~-G~~VtqaTisRDL~ 46 (149)
T 1b4a_A 8 IKIREIIMSNDIETQDELVDRLREA-GFNVTQATVSRDIK 46 (149)
T ss_dssp HHHHHHHHHSCCCSHHHHHHHHHHT-TCCCCHHHHHHHHH
T ss_pred HHHHHHHHHCCCccHHHHHHHHHHc-CCCcCHHHHHHHHH
Confidence 4566777788888999999999765 99999999987644
No 32
>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=21.26 E-value=81 Score=25.89 Aligned_cols=30 Identities=7% Similarity=0.223 Sum_probs=24.6
Q ss_pred HHHHhhhhcc--CCCCCHHHHHHHHHHHhCCc
Q 043258 58 SAMFLHRWKE--QPSISTTEVRNEIESMYGIK 87 (454)
Q Consensus 58 ~~~~~~~~~~--~~~~~~~~i~~~l~~~~g~~ 87 (454)
++++++.|.. ..+++|++|.-.|+.+||+.
T Consensus 30 ~eeVe~~I~klakkG~tpSqIG~iLRD~~GIp 61 (151)
T 3u5c_N 30 SESVIEQIVKYARKGLTPSQIGVLLRDAHGVT 61 (151)
T ss_dssp HHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCS
T ss_pred HHHHHHHHHHHHHCCCCHHHhhhHHhccCCCC
Confidence 5666666653 67999999999999999985
Done!