Query 005059
Match_columns 716
No_of_seqs 242 out of 406
Neff 6.7
Searched_HMMs 29240
Date Mon Mar 25 14:07:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005059.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/005059hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3kks_A Integrase, IN; beta-str 79.4 6.3 0.00022 35.3 8.4 65 294-372 4-68 (152)
2 1c0m_A Protein (integrase); HI 77.2 7.7 0.00026 38.4 9.0 69 294-371 12-80 (238)
3 1cxq_A Avian sarcoma virus int 76.7 8.6 0.0003 35.3 8.6 69 294-371 13-81 (162)
4 3l3u_A POL polyprotein; DNA in 61.7 30 0.001 31.3 8.8 65 294-372 11-75 (163)
5 1bco_A MUA domain II, bacterio 54.0 24 0.00083 36.6 7.5 72 293-371 17-96 (327)
6 3hph_A Integrase, IN; protein- 47.2 55 0.0019 31.3 8.4 65 294-372 62-126 (219)
7 2x78_A Integrase; viral protei 46.5 58 0.002 30.5 8.3 70 293-372 14-84 (200)
8 2ayd_A WRKY transcription fact 37.3 93 0.0032 25.6 6.7 29 127-156 43-71 (76)
9 1tc3_C Protein (TC3 transposas 34.6 75 0.0026 21.9 5.4 41 180-235 5-45 (51)
10 2kw0_A CCMH protein; oxidoredu 33.1 29 0.00098 29.6 3.1 32 181-215 41-72 (90)
11 2hl7_A Cytochrome C-type bioge 31.4 32 0.0011 29.0 3.1 32 181-215 44-75 (84)
12 1wj2_A Probable WRKY transcrip 27.8 1.3E+02 0.0046 24.8 6.2 29 127-156 46-74 (78)
13 3av9_A Integrase, IN; protein- 26.4 1.3E+02 0.0046 27.7 7.0 66 293-372 30-95 (183)
14 1ex4_A Integrase; SH3-like dom 24.8 1.2E+02 0.0042 29.4 6.7 65 294-372 11-75 (239)
15 3f9k_A Integrase; protein-prot 24.8 1.6E+02 0.0054 27.8 7.4 65 294-372 61-125 (210)
16 3oym_A PFV integrase, P42IN; p 20.7 2.1E+02 0.0073 29.7 8.0 70 294-372 127-196 (395)
17 1c6v_A Protein (SIV integrase) 20.6 2.1E+02 0.0072 25.1 6.9 65 294-372 11-75 (164)
No 1
>3kks_A Integrase, IN; beta-strands flanked by alpha-helices, DNA binding protein; 2.20A {Bovine immunodeficiency virus} PDB: 3kkr_A
Probab=79.37 E-value=6.3 Score=35.28 Aligned_cols=65 Identities=15% Similarity=0.123 Sum_probs=45.9
Q ss_pred EEEEeccccccccCCceEEEEEEcCCCCeEEEEEEEecCCChhhHHHHHHHHHHHhcccCCCcceEEEEEcCchhhhhh
Q 005059 294 LIAADSTFGIKRLKYPLCTLLVFDSRQHALPVAWVVTRSSAKPDVTKWMKSLLDRARSIEPGWKISGFLIDDAAAEIDP 372 (716)
Q Consensus 294 vi~~DsT~~tN~~~~pL~tl~v~d~~g~g~Pva~~i~~~et~e~~~~~L~~l~~~~~~~~p~~~P~~fmtD~d~A~~nA 372 (716)
++.+|.|+..+ .|.++++|.+-+.+ +++.+. +++.+.+..+|..++... | |+.|.+|......+.
T Consensus 4 ~w~~D~t~~~~-----~y~~~~iD~~sr~~-~~~~~~-~~~~~~~~~~l~~~~~~~----g---p~~i~sDnG~~f~s~ 68 (152)
T 3kks_A 4 LWQMDNTHWNK-----TIIWVAVETNSGLV-EAQVIP-EETALQVALCILQLIQRY----T---VLHLHSDNGPCFTAH 68 (152)
T ss_dssp EEEEEEEEETT-----EEEEEEEETTTCCE-EEEEES-SSCHHHHHHHHHHHHHHS----C---CSEEEECSCHHHHSH
T ss_pred EEEEeeeeeCC-----EEEEEEEEcCCCcE-EEEEeC-CcCHHHHHHHHHHHHHHh----C---CcEEecCCchHhhHH
Confidence 89999998743 27778889875555 777665 667766666665544433 2 889999999877654
No 2
>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=77.15 E-value=7.7 Score=38.42 Aligned_cols=69 Identities=9% Similarity=-0.005 Sum_probs=49.9
Q ss_pred EEEEeccccccccCCceEEEEEEcCCCCeEEEEEEEecCCChhhHHHHHHHHHHHhcccCCCcceEEEEEcCchhhhh
Q 005059 294 LIAADSTFGIKRLKYPLCTLLVFDSRQHALPVAWVVTRSSAKPDVTKWMKSLLDRARSIEPGWKISGFLIDDAAAEID 371 (716)
Q Consensus 294 vi~~DsT~~tN~~~~pL~tl~v~d~~g~g~Pva~~i~~~et~e~~~~~L~~l~~~~~~~~p~~~P~~fmtD~d~A~~n 371 (716)
++.+|.|+.....+. .|.++++|.+- ...+++.+. +.+.+.+..+|..++...+ .|..|.+|....+.+
T Consensus 12 ~w~~D~~~~~~~~g~-~yl~~~iD~~S-r~i~~~~~~-~~~~~~v~~~l~~~~~~~g------~p~~i~sDnG~~f~s 80 (238)
T 1c0m_A 12 IWQTDFTLEPRMAPR-SWLAVTVDTAS-SAIVVTQHG-RVTSVAVQHHWATAIAVLG------RPKAIKTDNGSCFTS 80 (238)
T ss_dssp EEEEEEEECGGGCSS-CEEEEEEETTT-CCEEEEEES-SCCHHHHHHHHHHHHHHHC------CCSEEEECSCHHHHS
T ss_pred EEEEeeccccccCCC-EEEEEEEECCC-CCEEEEEcc-CCCHHHHHHHHHHHHHHhC------CCcEEEECCCCcccc
Confidence 899999986544443 56677788764 455788877 7888887777776665553 377999999877654
No 3
>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=76.66 E-value=8.6 Score=35.25 Aligned_cols=69 Identities=7% Similarity=-0.027 Sum_probs=49.1
Q ss_pred EEEEeccccccccCCceEEEEEEcCCCCeEEEEEEEecCCChhhHHHHHHHHHHHhcccCCCcceEEEEEcCchhhhh
Q 005059 294 LIAADSTFGIKRLKYPLCTLLVFDSRQHALPVAWVVTRSSAKPDVTKWMKSLLDRARSIEPGWKISGFLIDDAAAEID 371 (716)
Q Consensus 294 vi~~DsT~~tN~~~~pL~tl~v~d~~g~g~Pva~~i~~~et~e~~~~~L~~l~~~~~~~~p~~~P~~fmtD~d~A~~n 371 (716)
++.+|.|+-....+. .|.++++|.+-+ ..+++.+. +.+.+.+..+|..++...+ .|..|.+|....+.+
T Consensus 13 ~~~~D~~~~~~~~g~-~yl~~~iD~~Sr-~i~~~~~~-~~~~~~v~~~l~~~~~~~g------~p~~i~sDnG~~f~s 81 (162)
T 1cxq_A 13 IWQTDFTLEPRMAPR-SWLAVTVDTASS-AIVVTQHG-RVTSVAAQHHWATAIAVLG------RPKAIKTDNGSCFTS 81 (162)
T ss_dssp EEEEEEEECGGGTTS-CEEEEEEETTTC-CEEEEEES-SCCHHHHHHHHHHHHHHHC------CCSEEECCSCHHHHS
T ss_pred EEEeeeeecccCCCC-EEEEEEEEcCCC-eEEEEECC-CccHHHHHHHHHHHHHHHC------CCeEEEeCCchhhhh
Confidence 899999986544443 566778888744 44778776 6777777677766655543 377999999977654
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=61.73 E-value=30 Score=31.33 Aligned_cols=65 Identities=12% Similarity=0.087 Sum_probs=45.5
Q ss_pred EEEEeccccccccCCceEEEEEEcCCCCeEEEEEEEecCCChhhHHHHHHHHHHHhcccCCCcceEEEEEcCchhhhhh
Q 005059 294 LIAADSTFGIKRLKYPLCTLLVFDSRQHALPVAWVVTRSSAKPDVTKWMKSLLDRARSIEPGWKISGFLIDDAAAEIDP 372 (716)
Q Consensus 294 vi~~DsT~~tN~~~~pL~tl~v~d~~g~g~Pva~~i~~~et~e~~~~~L~~l~~~~~~~~p~~~P~~fmtD~d~A~~nA 372 (716)
++.+|.|+.-+ .|.++++|.+-+.+ +++.+. +++.+.+..+|..++... .++.|.+|....+.++
T Consensus 11 ~w~~D~t~~~g-----~y~~~~iD~~sr~~-~~~~~~-~~~~~~~~~~l~~~~~~~-------~~~~i~sD~G~~f~s~ 75 (163)
T 3l3u_A 11 IWQLDCTHLEG-----KVILVAVHVASGYI-EAEVIP-AETGQETAYFLLKLAGRW-------PVKTVHTDNGSNFTST 75 (163)
T ss_dssp EEEEEEEEETT-----EEEEEEEETTTCCE-EEEEES-SCCHHHHHHHHHHHHHHS-------CCCEEEECCCGGGGSH
T ss_pred EEEEEecccCC-----cEEEEEEecCCCcE-EEEEeC-CCcHHHHHHHHHHHHHHc-------CCcEEeecChHhhhhH
Confidence 89999999643 36888889876655 777775 557776666665554443 2468999998876553
No 5
>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=53.98 E-value=24 Score=36.62 Aligned_cols=72 Identities=13% Similarity=0.043 Sum_probs=50.5
Q ss_pred eEEEEeccccccc----cCC--ceEEEEEEcCCCCeEEEEEEEecCCChhhHHHHHHHHHHHhcccCCCcceE--EEEEc
Q 005059 293 SLIAADSTFGIKR----LKY--PLCTLLVFDSRQHALPVAWVVTRSSAKPDVTKWMKSLLDRARSIEPGWKIS--GFLID 364 (716)
Q Consensus 293 ~vi~~DsT~~tN~----~~~--pL~tl~v~d~~g~g~Pva~~i~~~et~e~~~~~L~~l~~~~~~~~p~~~P~--~fmtD 364 (716)
.++.+|.|+---. .+- -.+..+++|.+- ...+||.+...++.+.+..+|...+...+ .|. .|.+|
T Consensus 17 ~~w~~D~t~~d~~~~~~~g~~~r~~l~~~iD~~S-R~ivg~~~~~~~~~~~v~~aL~~a~~~~G------~P~~~~i~sD 89 (327)
T 1bco_A 17 QWINGDGYLHNVFVRWFNGDVIRPKTWFWQDVKT-RKILGWRCDVSENIDSIRLSFMDVVTRYG------IPEDFHITID 89 (327)
T ss_dssp TEEEEEEEECSBCEECTTSCEECCEEEEEEETTT-CCEEEEEEESSCCHHHHHHHHHHHHHHHC------EESSCEEECC
T ss_pred cEEEecCCEEEEEEECCCCccceeEEEEEEECCC-CcEEEEEEECCCCHHHHHHHHHHHHHhcC------CCCCcEEEee
Confidence 3899999853211 131 356677788764 45599999999999988777776665543 588 99999
Q ss_pred Cchhhhh
Q 005059 365 DAAAEID 371 (716)
Q Consensus 365 ~d~A~~n 371 (716)
.-..+.+
T Consensus 90 nG~~f~s 96 (327)
T 1bco_A 90 NTRGAAN 96 (327)
T ss_dssp CTTSTTT
T ss_pred Cchhhcc
Confidence 9866544
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=47.25 E-value=55 Score=31.28 Aligned_cols=65 Identities=11% Similarity=-0.000 Sum_probs=44.7
Q ss_pred EEEEeccccccccCCceEEEEEEcCCCCeEEEEEEEecCCChhhHHHHHHHHHHHhcccCCCcceEEEEEcCchhhhhh
Q 005059 294 LIAADSTFGIKRLKYPLCTLLVFDSRQHALPVAWVVTRSSAKPDVTKWMKSLLDRARSIEPGWKISGFLIDDAAAEIDP 372 (716)
Q Consensus 294 vi~~DsT~~tN~~~~pL~tl~v~d~~g~g~Pva~~i~~~et~e~~~~~L~~l~~~~~~~~p~~~P~~fmtD~d~A~~nA 372 (716)
++.+|.|+..++ |.++++|.+-+.+ +++.+. +.+...+..+|..++... | |+.|.||....+.++
T Consensus 62 ~w~~D~t~~~~~-----y~~~~iD~~Sr~~-~~~~~~-~~~~~~~~~~l~~~~~~~----g---p~~i~sDnG~~F~s~ 126 (219)
T 3hph_A 62 HWQVDYTHYEDK-----IILVWVETNSGLI-YAERVK-GETGQEFRVQTMKWYAMF----A---PKSLQSDNGPAFVAE 126 (219)
T ss_dssp EEEEEEEEETTE-----EEEEEEETTTCCE-EEEEES-CCCHHHHHHHHHHHHHHH----C---CCEEEECCCHHHHSH
T ss_pred eEEEEEecCCCE-----EEEEEEeCCCCcE-EEEEeC-CCCHHHHHHHHHHHHHHh----C---CcEEEeCCCchhhhH
Confidence 789999865432 6788889876655 666654 556666655665544433 2 789999999877654
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=46.45 E-value=58 Score=30.46 Aligned_cols=70 Identities=16% Similarity=0.021 Sum_probs=44.1
Q ss_pred eEEEEec-cccccccCCceEEEEEEcCCCCeEEEEEEEecCCChhhHHHHHHHHHHHhcccCCCcceEEEEEcCchhhhh
Q 005059 293 SLIAADS-TFGIKRLKYPLCTLLVFDSRQHALPVAWVVTRSSAKPDVTKWMKSLLDRARSIEPGWKISGFLIDDAAAEID 371 (716)
Q Consensus 293 ~vi~~Ds-T~~tN~~~~pL~tl~v~d~~g~g~Pva~~i~~~et~e~~~~~L~~l~~~~~~~~p~~~P~~fmtD~d~A~~n 371 (716)
.++.+|- ++-....+ ..|.++++|.+-+ +.+++.+ .+.+.+.+..+|..++. . -.|+.|.+|....+.+
T Consensus 14 ~~~~~D~~~~~~~~~g-~~y~~~~iD~~Sr-~~~~~~~-~~~~~~~~~~~l~~~~~----~---g~p~~i~sDnG~~f~s 83 (200)
T 2x78_A 14 DKFFIDYIGPLPPSQG-YLYVLVVVDGMTG-FTWLYPT-KAPSTSATVKSLNVLTS----I---AIPRVIHSDQGAAFTS 83 (200)
T ss_dssp SEEEEEEECCCSCBTT-BCEEEEEEETTTC-CEEEEEE-SSSCHHHHHHHHHHHTT----T---CCCSEEEECSCHHHHS
T ss_pred cEEEEEEeCCCccCCC-CeEEEEEEeCCCC-cEEEEEC-CCCCHHHHHHHHHHHHH----h---CCCcEEEecCCcceeh
Confidence 3899997 44332333 4677788888744 4467776 56666665555543321 1 1588999999987655
Q ss_pred h
Q 005059 372 P 372 (716)
Q Consensus 372 A 372 (716)
.
T Consensus 84 ~ 84 (200)
T 2x78_A 84 S 84 (200)
T ss_dssp H
T ss_pred H
Confidence 3
No 8
>2ayd_A WRKY transcription factor 1; beta strands, zinc finger; 1.60A {Arabidopsis thaliana}
Probab=37.27 E-value=93 Score=25.62 Aligned_cols=29 Identities=24% Similarity=0.408 Sum_probs=23.4
Q ss_pred cCceeEEEEEEeecCCcEEEEEEecccCCC
Q 005059 127 RGCTCHFVVKRLYARPSLALLIYNDRRHVN 156 (716)
Q Consensus 127 ~gC~c~f~Vk~~~~~~~~~v~i~~~~~H~~ 156 (716)
.||.++=.|.+...++.+..++|. .+|+|
T Consensus 43 ~gC~a~K~Ver~~~d~~~~~~tY~-G~H~H 71 (76)
T 2ayd_A 43 PGCPVKKHVERSSHDTKLLITTYE-GKHDH 71 (76)
T ss_dssp TTCCCEEEEEECSSSTTEEEEEEE-SCCSS
T ss_pred CCCCceeeEEEECCCCCEEEEEEc-cCcCC
Confidence 599999889887678888888888 55765
No 9
>1tc3_C Protein (TC3 transposase); DNA binding, helix-turn-helix, TC1/mariner family, complex (transposase/DNA), DNA binding protein/DNA complex; HET: DNA; 2.45A {Caenorhabditis elegans} SCOP: a.4.1.2
Probab=34.58 E-value=75 Score=21.92 Aligned_cols=41 Identities=15% Similarity=0.052 Sum_probs=29.9
Q ss_pred CCCHHHHHHHHHHHHcCCChHHHHHHHHHHhhhhcCCCCcCCCCcHHHHHHHHHHh
Q 005059 180 YICNEIQQQTMSMIYLGIPEESVLEKHIEGIQRYCGSDAKVNSLASQYVQKLGMII 235 (716)
Q Consensus 180 ~Is~e~r~~I~~ll~~Gi~~~~Il~~ire~~~k~~g~~~r~~llT~kDV~Ni~~~~ 235 (716)
.++++++..|..+...|++..+|-.. + -++..-|+++...+
T Consensus 5 ~l~~~~~~~i~~~~~~g~s~~~IA~~----l-----------gis~~Tv~~~~~~~ 45 (51)
T 1tc3_C 5 ALSDTERAQLDVMKLLNVSLHEMSRK----I-----------SRSRHCIRVYLKDP 45 (51)
T ss_dssp CCCHHHHHHHHHHHHTTCCHHHHHHH----H-----------TCCHHHHHHHHHCS
T ss_pred CCCHHHHHHHHHHHHcCCCHHHHHHH----H-----------CcCHHHHHHHHhhH
Confidence 47899999999999999999888543 2 14556677665443
No 10
>2kw0_A CCMH protein; oxidoreductase, cytochrome C maturation; NMR {Escherichia coli}
Probab=33.08 E-value=29 Score=29.64 Aligned_cols=32 Identities=16% Similarity=0.444 Sum_probs=27.2
Q ss_pred CCHHHHHHHHHHHHcCCChHHHHHHHHHHhhhhcC
Q 005059 181 ICNEIQQQTMSMIYLGIPEESVLEKHIEGIQRYCG 215 (716)
Q Consensus 181 Is~e~r~~I~~ll~~Gi~~~~Il~~ire~~~k~~g 215 (716)
|..++|.+|.+++..|-+..+|++.+ +.+||.
T Consensus 41 iA~dlR~~Vre~l~~G~Sd~eI~~~m---v~RYGd 72 (90)
T 2kw0_A 41 IATDLRQKVYELMQEGKSKKEIVDYM---VARYGN 72 (90)
T ss_dssp HHHHHHHHHHHHHHHTCCHHHHHHHH---HHHHTT
T ss_pred HHHHHHHHHHHHHHcCCCHHHHHHHH---HHhcCC
Confidence 67899999999999999999998876 345554
No 11
>2hl7_A Cytochrome C-type biogenesis protein CCMH; three-helices bundle, oxidoreductase; HET: PG4; 1.70A {Pseudomonas aeruginosa}
Probab=31.40 E-value=32 Score=28.95 Aligned_cols=32 Identities=16% Similarity=0.399 Sum_probs=27.0
Q ss_pred CCHHHHHHHHHHHHcCCChHHHHHHHHHHhhhhcC
Q 005059 181 ICNEIQQQTMSMIYLGIPEESVLEKHIEGIQRYCG 215 (716)
Q Consensus 181 Is~e~r~~I~~ll~~Gi~~~~Il~~ire~~~k~~g 215 (716)
|..++|.+|.+++..|-+..+|++.+ +.+||.
T Consensus 44 iA~dlR~~V~~~l~~G~sd~eI~~~~---v~RYG~ 75 (84)
T 2hl7_A 44 IAADLRKQIYGQLQQGKSDGEIVDYM---VARYGD 75 (84)
T ss_dssp HHHHHHHHHHHHHHHTCCHHHHHHHH---HHHHTT
T ss_pred HHHHHHHHHHHHHHcCCCHHHHHHHH---HHhcCC
Confidence 67899999999999999999998876 345554
No 12
>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=27.85 E-value=1.3e+02 Score=24.78 Aligned_cols=29 Identities=24% Similarity=0.455 Sum_probs=23.4
Q ss_pred cCceeEEEEEEeecCCcEEEEEEecccCCC
Q 005059 127 RGCTCHFVVKRLYARPSLALLIYNDRRHVN 156 (716)
Q Consensus 127 ~gC~c~f~Vk~~~~~~~~~v~i~~~~~H~~ 156 (716)
.||.++=.|.+...++.+.+++|. .+|+|
T Consensus 46 ~gC~a~K~Ver~~~d~~~~~~tY~-G~H~H 74 (78)
T 1wj2_A 46 PGCGVRKHVERAATDPKAVVTTYE-GKHNH 74 (78)
T ss_dssp SSCEEEEEEEEETTTTSEEEEEEE-SCCSS
T ss_pred CCCCcEeeEEEEcCCCCEEEEEEe-eEcCC
Confidence 589999889887778888888887 55765
No 13
>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=26.38 E-value=1.3e+02 Score=27.70 Aligned_cols=66 Identities=12% Similarity=0.103 Sum_probs=39.8
Q ss_pred eEEEEeccccccccCCceEEEEEEcCCCCeEEEEEEEecCCChhhHHHHHHHHHHHhcccCCCcceEEEEEcCchhhhhh
Q 005059 293 SLIAADSTFGIKRLKYPLCTLLVFDSRQHALPVAWVVTRSSAKPDVTKWMKSLLDRARSIEPGWKISGFLIDDAAAEIDP 372 (716)
Q Consensus 293 ~vi~~DsT~~tN~~~~pL~tl~v~d~~g~g~Pva~~i~~~et~e~~~~~L~~l~~~~~~~~p~~~P~~fmtD~d~A~~nA 372 (716)
.++.+|.|+...+ +.++++|.+-+.+ +|+.+.+ .+...+..++..+.... .+..|.+|....+.+.
T Consensus 30 ~~w~~D~~~~~g~-----~~l~~vD~~Sr~~-~~~~~~~-~~~~~~~~~~~~~~~~~-------~~~~i~sDnG~ef~s~ 95 (183)
T 3av9_A 30 GIWQLDCTHLEGK-----VILVAVHVASGYI-EAEVIPA-ETGQETAYFLLKLAGRW-------PVKTVHTDNGSNFTST 95 (183)
T ss_dssp TEEEEEEEEETTE-----EEEEEEETTTTEE-EEEEESS-CCHHHHHHHHHHHHHHS-------CCCEEECSSHHHHHCH
T ss_pred CEEEEeccccCCc-----EEEEEEECCCCCE-EEEEeCC-ccchHHHHHHHHHHHHc-------CCcEEEecCchhcchH
Confidence 3899999987221 2344558765544 7877665 45554444443333322 2478999998876543
No 14
>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=24.77 E-value=1.2e+02 Score=29.38 Aligned_cols=65 Identities=14% Similarity=0.177 Sum_probs=39.5
Q ss_pred EEEEeccccccccCCceEEEEEEcCCCCeEEEEEEEecCCChhhHHHHHHHHHHHhcccCCCcceEEEEEcCchhhhhh
Q 005059 294 LIAADSTFGIKRLKYPLCTLLVFDSRQHALPVAWVVTRSSAKPDVTKWMKSLLDRARSIEPGWKISGFLIDDAAAEIDP 372 (716)
Q Consensus 294 vi~~DsT~~tN~~~~pL~tl~v~d~~g~g~Pva~~i~~~et~e~~~~~L~~l~~~~~~~~p~~~P~~fmtD~d~A~~nA 372 (716)
++.+|.|+... . +.++++|.+ ....+++.+.+..+.+ +..++..+... +.|..|.||....+.+.
T Consensus 11 ~w~~D~t~~~g----~-~~l~~vD~~-Sr~i~~~~~~~~~~~~-~~~~~~~~~~~-------~~~~~i~sDnG~eF~s~ 75 (239)
T 1ex4_A 11 IWQLDCTHLEG----K-VILVAVHVA-SGYIEAEVIPAETGQE-TAYFLLKLAGR-------WPVKTIHTDNGSNFTGA 75 (239)
T ss_dssp EEEEEEEEETT----E-EEEEEECTT-TCCEEEECCSSSSTTH-HHHHHHHHHHH-------SCCCEEEECCCHHHHCH
T ss_pred EEEEeccccCC----e-EEEEEEECC-CCeEEEEEeCCCCHHH-HHHHHHHHHHh-------cCCcEEEecCcHHHHHH
Confidence 89999999822 2 234444765 4455788766544444 43333333322 23689999999887654
No 15
>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=24.76 E-value=1.6e+02 Score=27.83 Aligned_cols=65 Identities=15% Similarity=0.111 Sum_probs=42.5
Q ss_pred EEEEeccccccccCCceEEEEEEcCCCCeEEEEEEEecCCChhhHHHHHHHHHHHhcccCCCcceEEEEEcCchhhhhh
Q 005059 294 LIAADSTFGIKRLKYPLCTLLVFDSRQHALPVAWVVTRSSAKPDVTKWMKSLLDRARSIEPGWKISGFLIDDAAAEIDP 372 (716)
Q Consensus 294 vi~~DsT~~tN~~~~pL~tl~v~d~~g~g~Pva~~i~~~et~e~~~~~L~~l~~~~~~~~p~~~P~~fmtD~d~A~~nA 372 (716)
++.+|.|+.-+ -|.++++|.+-+ ..+++.+.+ .+.+.+..+|..++... | +..|.+|....+.++
T Consensus 61 ~w~~D~~~~~~-----~y~l~~vD~~sr-~~~~~~~~~-~~~~~~~~~l~~~~~~~----g---~~~i~sDnG~~F~s~ 125 (210)
T 3f9k_A 61 TWQMDCTHLEG-----KIIIVAVHVASG-FIEAEVIPQ-ESGRQTALFLLKLASRW----P---ITHLHTDNGANFTSQ 125 (210)
T ss_dssp EEEEEEEEETT-----EEEEEEEETTTT-EEEEEEESS-CCHHHHHHHHHHHHTTS----C---CSEEEECCCTTTSSH
T ss_pred eEeEeecccCC-----eEEEEEEEcCCC-cEEEEEeCC-cchHHHHHHHHHHHHHc----C---CCEEEeCCCchhhHH
Confidence 78999887643 357778888755 567776655 67666665555433322 2 235999999876653
No 16
>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=20.65 E-value=2.1e+02 Score=29.69 Aligned_cols=70 Identities=14% Similarity=0.030 Sum_probs=43.5
Q ss_pred EEEEeccccccccCCceEEEEEEcCCCCeEEEEEEEecCCChhhHHHHHHHHHHHhcccCCCcceEEEEEcCchhhhhh
Q 005059 294 LIAADSTFGIKRLKYPLCTLLVFDSRQHALPVAWVVTRSSAKPDVTKWMKSLLDRARSIEPGWKISGFLIDDAAAEIDP 372 (716)
Q Consensus 294 vi~~DsT~~tN~~~~pL~tl~v~d~~g~g~Pva~~i~~~et~e~~~~~L~~l~~~~~~~~p~~~P~~fmtD~d~A~~nA 372 (716)
++.+|-+...-..+=..|.++++|.+-+ ..+++.+.+ .+......+| .++...+ .|..|.||....+.+.
T Consensus 127 ~~~~D~~~~~~~~~g~~y~l~~vD~~sr-~~~~~~~~~-~~~~~~~~~l-~~~~~~g------~p~~i~sDnG~~f~s~ 196 (395)
T 3oym_A 127 KFFIDYIGPLPPSQGYLYVLVVVDGMTG-FTWLYPTKA-PSTSATVKSL-NVLTSIA------IPKVIHSDQGAAFTSS 196 (395)
T ss_dssp EEEEEEECCCSCBTTBCEEEEEEETTTC-CEEEEEESS-SCHHHHHHHH-HHHTTTC------CCSEEEECSCHHHHSH
T ss_pred EEEEEEecccCCCCCccEEEEEEecCCc-eEEEEEecC-CcHHHHHHHh-hHhhccC------CceEEEeCCCCceecH
Confidence 7999977543222334567788888754 456776655 5555555555 2222221 4889999999887654
No 17
>1c6v_A Protein (SIV integrase); DNA integration, DNA binding protein; 3.00A {Simian immunodeficiency virus} SCOP: c.55.3.2
Probab=20.57 E-value=2.1e+02 Score=25.11 Aligned_cols=65 Identities=15% Similarity=0.175 Sum_probs=39.9
Q ss_pred EEEEeccccccccCCceEEEEEEcCCCCeEEEEEEEecCCChhhHHHHHHHHHHHhcccCCCcceEEEEEcCchhhhhh
Q 005059 294 LIAADSTFGIKRLKYPLCTLLVFDSRQHALPVAWVVTRSSAKPDVTKWMKSLLDRARSIEPGWKISGFLIDDAAAEIDP 372 (716)
Q Consensus 294 vi~~DsT~~tN~~~~pL~tl~v~d~~g~g~Pva~~i~~~et~e~~~~~L~~l~~~~~~~~p~~~P~~fmtD~d~A~~nA 372 (716)
++.+|.|+. + +. +.++++|.+- ...+++.+.+ .+.+.+..++..+ +.. +.|..+.+|......+.
T Consensus 11 ~w~~D~~~~-~--g~--~~l~~iD~~S-r~~~~~~~~~-~~~~~~~~~~~~~---~~~----~~~~~i~sDnG~~f~s~ 75 (164)
T 1c6v_A 11 TWQMDCTHL-E--GK--IVIVAVHVAS-GFIEAEVIPQ-ETGRQTALFLLKL---AGR----WPITHLHTDNGANFASQ 75 (164)
T ss_dssp EEEEEEEEE-T--TE--EEEEEECTTS-CCEEEEECSS-CSHHHHHHHHHHH---HTT----SCCCEEECCCCSSTTSS
T ss_pred EEEEeeccc-C--CE--EEEEEEEccC-CEEEEEEcCC-CchHHHHHHHHHH---HHh----cCCCEEEeCCchhhhhH
Confidence 799999988 2 22 3455578764 4557776654 5555544444333 222 13689999998776543
Done!