Query 020416
Match_columns 326
No_of_seqs 101 out of 107
Neff 3.4
Searched_HMMs 29240
Date Mon Mar 25 16:31:57 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020416.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/020416hhsearch_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 92.9 0.58 2E-05 36.2 8.6 81 99-191 3-85 (152)
2 1cxq_A Avian sarcoma virus int 91.5 0.65 2.2E-05 37.2 7.5 88 98-192 11-100 (162)
3 1c0m_A Protein (integrase); HI 91.3 0.86 3E-05 39.4 8.7 87 98-191 10-98 (238)
4 2x78_A Integrase; viral protei 90.8 0.78 2.7E-05 37.7 7.5 87 98-191 13-101 (200)
5 1bco_A MUA domain II, bacterio 84.7 0.83 2.8E-05 41.7 4.4 90 98-191 16-131 (327)
6 3hph_A Integrase, IN; protein- 82.2 5.8 0.0002 33.2 8.3 82 99-192 61-144 (219)
7 3l3u_A POL polyprotein; DNA in 77.3 7 0.00024 30.9 6.9 82 98-191 9-92 (163)
8 1c6v_A Protein (SIV integrase) 69.4 6.1 0.00021 30.6 4.7 79 98-191 9-92 (164)
9 3oym_A PFV integrase, P42IN; p 61.3 35 0.0012 30.9 8.8 87 98-191 125-213 (395)
10 3av9_A Integrase, IN; protein- 55.0 59 0.002 26.4 8.3 81 99-191 30-112 (183)
11 4fcy_A Transposase; rnaseh, DD 54.1 13 0.00046 35.5 4.9 92 98-191 187-302 (529)
12 3f9k_A Integrase; protein-prot 48.3 28 0.00094 29.0 5.4 82 98-191 59-142 (210)
13 1k6y_A Integrase; HIV-1, domai 43.4 64 0.0022 26.5 6.8 81 99-191 59-141 (212)
14 1ex4_A Integrase; SH3-like dom 36.4 1.2E+02 0.0041 25.7 7.7 82 98-191 9-92 (239)
15 4dyq_A Gene 1 protein; GP1, oc 25.7 33 0.0011 27.9 2.2 22 176-202 31-52 (140)
16 3txv_A Probable tagatose 6-pho 21.2 1.4E+02 0.0047 29.9 5.9 44 141-187 29-86 (450)
No 1
>3kks_A Integrase, IN; beta-strands flanked by alpha-helices, DNA binding protein; 2.20A {Bovine immunodeficiency virus} PDB: 3kkr_A
Probab=92.90 E-value=0.58 Score=36.22 Aligned_cols=81 Identities=15% Similarity=0.164 Sum_probs=61.2
Q ss_pred cccccccccCccccCCCceeEEEEEeeCCCceEEEecCCCCCCCHHHHHHHHHHHHHhcCCCCCCeeeeeHHHHH--HHH
Q 020416 99 TEWELDFCSRPILDIRGKKIWELVVCDGSLSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRSQMQ--TII 176 (326)
Q Consensus 99 ~iWELDFYSRPilD~~GKKlWELLICDs~~~F~y~~~CP~s~VNS~WL~~AL~~ai~~~~~~~P~~IRfFR~QM~--nmI 176 (326)
.+||+|+-.- |+ .|=++|.|.-+.+.+...++ ..++..+..+|..++...| |..|+.=|..-. ..+
T Consensus 3 ~~w~~D~t~~------~~-~y~~~~iD~~sr~~~~~~~~--~~~~~~~~~~l~~~~~~~g---p~~i~sDnG~~f~s~~~ 70 (152)
T 3kks_A 3 HLWQMDNTHW------NK-TIIWVAVETNSGLVEAQVIP--EETALQVALCILQLIQRYT---VLHLHSDNGPCFTAHRI 70 (152)
T ss_dssp CEEEEEEEEE------TT-EEEEEEEETTTCCEEEEEES--SSCHHHHHHHHHHHHHHSC---CSEEEECSCHHHHSHHH
T ss_pred cEEEEeeeee------CC-EEEEEEEEcCCCcEEEEEeC--CcCHHHHHHHHHHHHHHhC---CcEEecCCchHhhHHHH
Confidence 4899999643 44 48888888887788887776 5678889999999888754 899876553222 357
Q ss_pred HHHHhhCCCcccccc
Q 020416 177 TKACKELDIKPIPSK 191 (326)
Q Consensus 177 ~kAc~eLgI~v~PSR 191 (326)
+..|+++||...-++
T Consensus 71 ~~~~~~~gi~~~~~~ 85 (152)
T 3kks_A 71 ENLCKYLGITKTTGI 85 (152)
T ss_dssp HHHHHHTTCEEEESS
T ss_pred HHHHHHcCCeecccC
Confidence 888999999987665
No 2
>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=91.46 E-value=0.65 Score=37.23 Aligned_cols=88 Identities=16% Similarity=0.197 Sum_probs=64.2
Q ss_pred ccccccccccCccccCCCceeEEEEEeeCCCceEEEecCCCCCCCHHHHHHHHHHHHHhcCCCCCCeeeeeHH-HHH-HH
Q 020416 98 ITEWELDFCSRPILDIRGKKIWELVVCDGSLSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRS-QMQ-TI 175 (326)
Q Consensus 98 m~iWELDFYSRPilD~~GKKlWELLICDs~~~F~y~~~CP~s~VNS~WL~~AL~~ai~~~~~~~P~~IRfFR~-QM~-nm 175 (326)
...|++||-.-+. .+|+ .|=++|.|.-+.+.....+. ..++..+.++|+.++...| .|..|+.=|. +.. ..
T Consensus 11 ~~~~~~D~~~~~~--~~g~-~yl~~~iD~~Sr~i~~~~~~--~~~~~~v~~~l~~~~~~~g--~p~~i~sDnG~~f~s~~ 83 (162)
T 1cxq_A 11 LQIWQTDFTLEPR--MAPR-SWLAVTVDTASSAIVVTQHG--RVTSVAAQHHWATAIAVLG--RPKAIKTDNGSCFTSKS 83 (162)
T ss_dssp CCEEEEEEEECGG--GTTS-CEEEEEEETTTCCEEEEEES--SCCHHHHHHHHHHHHHHHC--CCSEEECCSCHHHHSHH
T ss_pred CCEEEeeeeeccc--CCCC-EEEEEEEEcCCCeEEEEECC--CccHHHHHHHHHHHHHHHC--CCeEEEeCCchhhhhHH
Confidence 3689999986444 3454 77788888777777777776 5888899999999999865 4888865433 221 34
Q ss_pred HHHHHhhCCCccccccc
Q 020416 176 ITKACKELDIKPIPSKR 192 (326)
Q Consensus 176 I~kAc~eLgI~v~PSRR 192 (326)
++..|+++||...-|+.
T Consensus 84 ~~~~~~~~gi~~~~~~p 100 (162)
T 1cxq_A 84 TREWLARWGIAHTTGIP 100 (162)
T ss_dssp HHHHHHHHTCEEECCCC
T ss_pred HHHHHHHCCCeEeeCCC
Confidence 67889999999887653
No 3
>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=91.34 E-value=0.86 Score=39.42 Aligned_cols=87 Identities=16% Similarity=0.205 Sum_probs=66.0
Q ss_pred ccccccccccCccccCCCceeEEEEEeeCCCceEEEecCCCCCCCHHHHHHHHHHHHHhcCCCCCCeeeeeHHHHH--HH
Q 020416 98 ITEWELDFCSRPILDIRGKKIWELVVCDGSLSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRSQMQ--TI 175 (326)
Q Consensus 98 m~iWELDFYSRPilD~~GKKlWELLICDs~~~F~y~~~CP~s~VNS~WL~~AL~~ai~~~~~~~P~~IRfFR~QM~--nm 175 (326)
...|+.|+-.-+. .+| +.|=++|.|.-+.+.+...+. ..++..+.++|+.++...| .|..|+.=+..-. ..
T Consensus 10 ~~~w~~D~~~~~~--~~g-~~yl~~~iD~~Sr~i~~~~~~--~~~~~~v~~~l~~~~~~~g--~p~~i~sDnG~~f~s~~ 82 (238)
T 1c0m_A 10 LQIWQTDFTLEPR--MAP-RSWLAVTVDTASSAIVVTQHG--RVTSVAVQHHWATAIAVLG--RPKAIKTDNGSCFTSKS 82 (238)
T ss_dssp TSEEEEEEEECGG--GCS-SCEEEEEEETTTCCEEEEEES--SCCHHHHHHHHHHHHHHHC--CCSEEEECSCHHHHSHH
T ss_pred CCEEEEeeccccc--cCC-CEEEEEEEECCCCCEEEEEcc--CCCHHHHHHHHHHHHHHhC--CCcEEEECCCCccccHH
Confidence 4689999985443 234 588899999888888887776 6899999999999999875 4888876543222 34
Q ss_pred HHHHHhhCCCcccccc
Q 020416 176 ITKACKELDIKPIPSK 191 (326)
Q Consensus 176 I~kAc~eLgI~v~PSR 191 (326)
++..|+++||...-++
T Consensus 83 ~~~~~~~~gI~~~~~~ 98 (238)
T 1c0m_A 83 TREWLARWGIAHTTGI 98 (238)
T ss_dssp HHHHHHHHTCEEEECC
T ss_pred HHHHHHHCCCEEEecC
Confidence 6788999999886554
No 4
>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=90.77 E-value=0.78 Score=37.72 Aligned_cols=87 Identities=17% Similarity=0.210 Sum_probs=62.2
Q ss_pred ccccccccccCccccCCCceeEEEEEeeCCCceEEEecCCCCCCCHHHHHHHHHHHHHhcCCCCCCeeeeeHHHHH--HH
Q 020416 98 ITEWELDFCSRPILDIRGKKIWELVVCDGSLSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRSQMQ--TI 175 (326)
Q Consensus 98 m~iWELDFYSRPilD~~GKKlWELLICDs~~~F~y~~~CP~s~VNS~WL~~AL~~ai~~~~~~~P~~IRfFR~QM~--nm 175 (326)
...|++||.. |+...+| +.|=++|.|.-+.+.+...+. .-++..+.++|+.++.. ..|..|+.=|..-. ..
T Consensus 13 ~~~~~~D~~~-~~~~~~g-~~y~~~~iD~~Sr~~~~~~~~--~~~~~~~~~~l~~~~~~---g~p~~i~sDnG~~f~s~~ 85 (200)
T 2x78_A 13 FDKFFIDYIG-PLPPSQG-YLYVLVVVDGMTGFTWLYPTK--APSTSATVKSLNVLTSI---AIPRVIHSDQGAAFTSST 85 (200)
T ss_dssp TSEEEEEEEC-CCSCBTT-BCEEEEEEETTTCCEEEEEES--SSCHHHHHHHHHHHTTT---CCCSEEEECSCHHHHSHH
T ss_pred ccEEEEEEeC-CCccCCC-CeEEEEEEeCCCCcEEEEECC--CCCHHHHHHHHHHHHHh---CCCcEEEecCCcceehHH
Confidence 4689999953 3333456 678888888777788887774 45666778889877763 45888877554322 34
Q ss_pred HHHHHhhCCCcccccc
Q 020416 176 ITKACKELDIKPIPSK 191 (326)
Q Consensus 176 I~kAc~eLgI~v~PSR 191 (326)
+...|+++||...-|+
T Consensus 86 ~~~~~~~~gi~~~~~~ 101 (200)
T 2x78_A 86 FAEWAKERGIHLEFST 101 (200)
T ss_dssp HHHHHHHHTCEEEECC
T ss_pred HHHHHHHcCceEeECC
Confidence 7888999999987765
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=84.73 E-value=0.83 Score=41.71 Aligned_cols=90 Identities=11% Similarity=-0.045 Sum_probs=62.8
Q ss_pred ccccccccccCccc--cCCCc--eeEEEEEeeCCCceEEE-ecCCCCCCCHHHHHHHHHHHHHhcCCCCCC--eee----
Q 020416 98 ITEWELDFCSRPIL--DIRGK--KIWELVVCDGSLSLQYT-KYFPNNVINSITLKEAIVAICDDLGVPIPE--KIR---- 166 (326)
Q Consensus 98 m~iWELDFYSRPil--D~~GK--KlWELLICDs~~~F~y~-~~CP~s~VNS~WL~~AL~~ai~~~~~~~P~--~IR---- 166 (326)
...||.|+..-.+. +.+|+ +.|=++|.|.-+..... ..++ + -|+.-+..+|+.|+...| .|. .|.
T Consensus 16 ~~~w~~D~t~~d~~~~~~~g~~~r~~l~~~iD~~SR~ivg~~~~~-~-~~~~~v~~aL~~a~~~~G--~P~~~~i~sDnG 91 (327)
T 1bco_A 16 MQWINGDGYLHNVFVRWFNGDVIRPKTWFWQDVKTRKILGWRCDV-S-ENIDSIRLSFMDVVTRYG--IPEDFHITIDNT 91 (327)
T ss_dssp TTEEEEEEEECSBCEECTTSCEECCEEEEEEETTTCCEEEEEEES-S-CCHHHHHHHHHHHHHHHC--EESSCEEECCCT
T ss_pred CcEEEecCCEEEEEEECCCCccceeEEEEEEECCCCcEEEEEEEC-C-CCHHHHHHHHHHHHHhcC--CCCCcEEEeeCc
Confidence 57999998766654 44576 57778888876444333 3334 2 388889999999999865 477 664
Q ss_pred -eeHHHHH--------------HHHHHHHhhCCCcccccc
Q 020416 167 -FFRSQMQ--------------TIITKACKELDIKPIPSK 191 (326)
Q Consensus 167 -fFR~QM~--------------nmI~kAc~eLgI~v~PSR 191 (326)
-|++... .-++.+|+++||.+.-+|
T Consensus 92 ~~f~s~~~~g~~~~~~~~~~~~~~~~~~~~~lgI~~~~~~ 131 (327)
T 1bco_A 92 RGAANKWLTGGAPNRYRFKVKEDDPKGLFLLMGAKMHWTS 131 (327)
T ss_dssp TSTTTTTTSCCCTTTTBSCBCCCCHHHHHHHHTCEEECSS
T ss_pred hhhccccccccccccccccccccchhhHHHhcCeEEEecC
Confidence 4665543 223579999999998777
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=82.17 E-value=5.8 Score=33.18 Aligned_cols=82 Identities=13% Similarity=0.154 Sum_probs=59.6
Q ss_pred cccccccccCccccCCCceeEEEEEeeCCCceEEEecCCCCCCCHHHHHHHHHHHHHhcCCCCCCeeeeeHHHHH--HHH
Q 020416 99 TEWELDFCSRPILDIRGKKIWELVVCDGSLSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRSQMQ--TII 176 (326)
Q Consensus 99 ~iWELDFYSRPilD~~GKKlWELLICDs~~~F~y~~~CP~s~VNS~WL~~AL~~ai~~~~~~~P~~IRfFR~QM~--nmI 176 (326)
..|++||-. .|++ +=++|.|.-+.+.+...+++ .++..+..+|..++...| |..|+.=|..-. ..+
T Consensus 61 ~~w~~D~t~------~~~~-y~~~~iD~~Sr~~~~~~~~~--~~~~~~~~~l~~~~~~~g---p~~i~sDnG~~F~s~~~ 128 (219)
T 3hph_A 61 DHWQVDYTH------YEDK-IILVWVETNSGLIYAERVKG--ETGQEFRVQTMKWYAMFA---PKSLQSDNGPAFVAEST 128 (219)
T ss_dssp CEEEEEEEE------ETTE-EEEEEEETTTCCEEEEEESC--CCHHHHHHHHHHHHHHHC---CCEEEECCCHHHHSHHH
T ss_pred ceEEEEEec------CCCE-EEEEEEeCCCCcEEEEEeCC--CCHHHHHHHHHHHHHHhC---CcEEEeCCCchhhhHHH
Confidence 689999952 2444 77888887777777776664 467788889988888764 888876554332 367
Q ss_pred HHHHhhCCCccccccc
Q 020416 177 TKACKELDIKPIPSKR 192 (326)
Q Consensus 177 ~kAc~eLgI~v~PSRR 192 (326)
+..|+++||...-|+.
T Consensus 129 ~~~~~~~gi~~~~s~p 144 (219)
T 3hph_A 129 QLLMKYLGIEHTTGIP 144 (219)
T ss_dssp HHHHHHHTCEEEESCC
T ss_pred HHHHHHcCCeEeECCC
Confidence 8899999999876654
No 7
>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=77.28 E-value=7 Score=30.86 Aligned_cols=82 Identities=15% Similarity=0.131 Sum_probs=58.9
Q ss_pred ccccccccccCccccCCCceeEEEEEeeCCCceEEEecCCCCCCCHHHHHHHHHHHHHhcCCCCCCeeeeeHHHH--HHH
Q 020416 98 ITEWELDFCSRPILDIRGKKIWELVVCDGSLSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRSQM--QTI 175 (326)
Q Consensus 98 m~iWELDFYSRPilD~~GKKlWELLICDs~~~F~y~~~CP~s~VNS~WL~~AL~~ai~~~~~~~P~~IRfFR~QM--~nm 175 (326)
...|+.|+-.- +| .+=++|.|.-+.+.+...+++. ++..+..+|..++...| +..|+.=|..- ...
T Consensus 9 ~~~w~~D~t~~-----~g--~y~~~~iD~~sr~~~~~~~~~~--~~~~~~~~l~~~~~~~~---~~~i~sD~G~~f~s~~ 76 (163)
T 3l3u_A 9 PGIWQLDCTHL-----EG--KVILVAVHVASGYIEAEVIPAE--TGQETAYFLLKLAGRWP---VKTVHTDNGSNFTSTT 76 (163)
T ss_dssp TTEEEEEEEEE-----TT--EEEEEEEETTTCCEEEEEESSC--CHHHHHHHHHHHHHHSC---CCEEEECCCGGGGSHH
T ss_pred CCEEEEEeccc-----CC--cEEEEEEecCCCcEEEEEeCCC--cHHHHHHHHHHHHHHcC---CcEEeecChHhhhhHH
Confidence 36899999642 35 3777888888788888888754 88889999998888743 46665433221 145
Q ss_pred HHHHHhhCCCcccccc
Q 020416 176 ITKACKELDIKPIPSK 191 (326)
Q Consensus 176 I~kAc~eLgI~v~PSR 191 (326)
++..|+++||...-|+
T Consensus 77 ~~~~~~~~gi~~~~~~ 92 (163)
T 3l3u_A 77 VKAACDWAGIKQEDGI 92 (163)
T ss_dssp HHHHHHHHTCEEEETC
T ss_pred HHHHHHHCCceeeeCC
Confidence 6888999999877654
No 8
>1c6v_A Protein (SIV integrase); DNA integration, DNA binding protein; 3.00A {Simian immunodeficiency virus} SCOP: c.55.3.2
Probab=69.41 E-value=6.1 Score=30.63 Aligned_cols=79 Identities=13% Similarity=0.136 Sum_probs=53.5
Q ss_pred ccccccccccCccccCCCceeEEEEEeeCCCceEEEecCCCCCCCHHHHHHHHHHHHHhcCCCCCCeeee-----eHHHH
Q 020416 98 ITEWELDFCSRPILDIRGKKIWELVVCDGSLSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRF-----FRSQM 172 (326)
Q Consensus 98 m~iWELDFYSRPilD~~GKKlWELLICDs~~~F~y~~~CP~s~VNS~WL~~AL~~ai~~~~~~~P~~IRf-----FR~QM 172 (326)
...|+.|+-.- +|| +=|.+.|.-+.+.+...+++ -++..+..++.+++...| |..|+. |++.
T Consensus 9 ~~~w~~D~~~~-----~g~--~~l~~iD~~Sr~~~~~~~~~--~~~~~~~~~~~~~~~~~~---~~~i~sDnG~~f~s~- 75 (164)
T 1c6v_A 9 LGTWQMDCTHL-----EGK--IVIVAVHVASGFIEAEVIPQ--ETGRQTALFLLKLAGRWP---ITHLHTDNGANFASQ- 75 (164)
T ss_dssp TTEEEEEEEEE-----TTE--EEEEEECTTSCCEEEEECSS--CSHHHHHHHHHHHHTTSC---CCEEECCCCSSTTSS-
T ss_pred CCEEEEeeccc-----CCE--EEEEEEEccCCEEEEEEcCC--CchHHHHHHHHHHHHhcC---CCEEEeCCchhhhhH-
Confidence 46899998643 565 56666676667777777764 577778888888777532 566643 4443
Q ss_pred HHHHHHHHhhCCCcccccc
Q 020416 173 QTIITKACKELDIKPIPSK 191 (326)
Q Consensus 173 ~nmI~kAc~eLgI~v~PSR 191 (326)
.++..|+++||....++
T Consensus 76 --~~~~~~~~~gi~~~~~~ 92 (164)
T 1c6v_A 76 --EVKMVAWWAGIEHTFGV 92 (164)
T ss_dssp --HHHHHHHHHTCEEECC-
T ss_pred --HHHHHHHHcCCeEeECC
Confidence 45778889999887664
No 9
>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=61.33 E-value=35 Score=30.86 Aligned_cols=87 Identities=17% Similarity=0.242 Sum_probs=59.9
Q ss_pred ccccccccccCccccCCCceeEEEEEeeCCCceEEEecCCCCCCCHHHHHHHHHHHHHhcCCCCCCeeeeeHHHHH--HH
Q 020416 98 ITEWELDFCSRPILDIRGKKIWELVVCDGSLSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRSQMQ--TI 175 (326)
Q Consensus 98 m~iWELDFYSRPilD~~GKKlWELLICDs~~~F~y~~~CP~s~VNS~WL~~AL~~ai~~~~~~~P~~IRfFR~QM~--nm 175 (326)
...|.+||.- |+...+| +.+=|+|.|.-+.+.+...+.+ .++.-...+| .++...| .|..|+.=|..-+ ..
T Consensus 125 ~~~~~~D~~~-~~~~~~g-~~y~l~~vD~~sr~~~~~~~~~--~~~~~~~~~l-~~~~~~g--~p~~i~sDnG~~f~s~~ 197 (395)
T 3oym_A 125 FDKFFIDYIG-PLPPSQG-YLYVLVVVDGMTGFTWLYPTKA--PSTSATVKSL-NVLTSIA--IPKVIHSDQGAAFTSST 197 (395)
T ss_dssp TSEEEEEEEC-CCSCBTT-BCEEEEEEETTTCCEEEEEESS--SCHHHHHHHH-HHHTTTC--CCSEEEECSCHHHHSHH
T ss_pred ceEEEEEEec-ccCCCCC-ccEEEEEEecCCceEEEEEecC--CcHHHHHHHh-hHhhccC--CceEEEeCCCCceecHH
Confidence 5799999865 3333444 6788888887777777777765 5566666777 5555544 5888876443222 46
Q ss_pred HHHHHhhCCCcccccc
Q 020416 176 ITKACKELDIKPIPSK 191 (326)
Q Consensus 176 I~kAc~eLgI~v~PSR 191 (326)
++..|+++||...-|+
T Consensus 198 ~~~~~~~~gi~~~~s~ 213 (395)
T 3oym_A 198 FAEWAKERGIHLEFST 213 (395)
T ss_dssp HHHHHHHTTCEEEECC
T ss_pred HHHHHHHcCCceeecC
Confidence 7888999999876554
No 10
>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=54.99 E-value=59 Score=26.37 Aligned_cols=81 Identities=16% Similarity=0.193 Sum_probs=55.3
Q ss_pred cccccccccCccccCCCceeEEEEEeeCCCceEEEecCCCCCCCHHHHHHHHHHHHHhcCCCCCCeeeeeHHH-H-HHHH
Q 020416 99 TEWELDFCSRPILDIRGKKIWELVVCDGSLSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRSQ-M-QTII 176 (326)
Q Consensus 99 ~iWELDFYSRPilD~~GKKlWELLICDs~~~F~y~~~CP~s~VNS~WL~~AL~~ai~~~~~~~P~~IRfFR~Q-M-~nmI 176 (326)
..|+.||-. + +| |. =|.+.|.-..+.+...+++ -++..+..++.+++...| +..|+.=|.. . ...+
T Consensus 30 ~~w~~D~~~--~---~g-~~-~l~~vD~~Sr~~~~~~~~~--~~~~~~~~~~~~~~~~~~---~~~i~sDnG~ef~s~~~ 97 (183)
T 3av9_A 30 GIWQLDCTH--L---EG-KV-ILVAVHVASGYIEAEVIPA--ETGQETAYFLLKLAGRWP---VKTVHTDNGSNFTSTTV 97 (183)
T ss_dssp TEEEEEEEE--E---TT-EE-EEEEEETTTTEEEEEEESS--CCHHHHHHHHHHHHHHSC---CCEEECSSHHHHHCHHH
T ss_pred CEEEEeccc--c---CC-cE-EEEEEECCCCCEEEEEeCC--ccchHHHHHHHHHHHHcC---CcEEEecCchhcchHHH
Confidence 589999973 2 55 34 3555577777778877765 467788888888777642 3666554432 2 2357
Q ss_pred HHHHhhCCCcccccc
Q 020416 177 TKACKELDIKPIPSK 191 (326)
Q Consensus 177 ~kAc~eLgI~v~PSR 191 (326)
...|+++||...-++
T Consensus 98 ~~~~~~~gI~~~~s~ 112 (183)
T 3av9_A 98 KAACWWAGIKQEDGI 112 (183)
T ss_dssp HHHHHHHTCEEECCC
T ss_pred HHHHHHCCCEEeecC
Confidence 889999999988764
No 11
>4fcy_A Transposase; rnaseh, DDE transposase, DNA binding protein-DNA complex; HET: DNA; 3.71A {Enterobacteria phage MU} PDB: 2ezk_A 2ezl_A 2ezh_A 2ezi_A
Probab=54.08 E-value=13 Score=35.53 Aligned_cols=92 Identities=11% Similarity=-0.104 Sum_probs=53.6
Q ss_pred ccccccccccCcc--ccCCCce--eEEEEEeeCC-CceEEEecCCCCCCCHHHHHHHHHHHHHhcCCCCCCee-----ee
Q 020416 98 ITEWELDFCSRPI--LDIRGKK--IWELVVCDGS-LSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKI-----RF 167 (326)
Q Consensus 98 m~iWELDFYSRPi--lD~~GKK--lWELLICDs~-~~F~y~~~CP~s~VNS~WL~~AL~~ai~~~~~~~P~~I-----Rf 167 (326)
+.+||+|+..-.+ .|.+|+. .|=.++-|.- +..---..++ .-||.-...+|..++...|.+.+..| .-
T Consensus 187 ~e~~~~D~t~~dv~~~~~~g~~~Rp~l~~~iD~~SR~i~g~~~~~--~~~~~~~~~~l~~a~~~~g~p~~~~i~~Dng~~ 264 (529)
T 4fcy_A 187 MQWINGDGYLHNVFVRWFNGDVIRPKTWFWQDVKTRKILGWRCDV--SENIDSIRLSFMDVVTRYGIPEDFHITIDNTRG 264 (529)
T ss_dssp TTEEEEEEEECCSCEECTTSCEECCEEEEEEETTTCCEEEEEEES--SCCHHHHHHHHHHHHHHHCEESSEEEECCCC--
T ss_pred CCEEEeCeEEecceeECCCCCeeeEEEEEEEEccCCcEEEEEecC--CCCHHHHHHHHHHHHHHhCCCCeeEEEeeCchh
Confidence 5789999876554 4667763 4655555554 4433333444 35778888899999988765333223 45
Q ss_pred eHHHHHH--------------HHHHHHhhCCCcccccc
Q 020416 168 FRSQMQT--------------IITKACKELDIKPIPSK 191 (326)
Q Consensus 168 FR~QM~n--------------mI~kAc~eLgI~v~PSR 191 (326)
|++.+.+ =++.+|..|||.+..++
T Consensus 265 ~~s~~~~~~~~~~~~~~~~~~~~~~~~~~lGI~~~~~~ 302 (529)
T 4fcy_A 265 AANKWLTGGAPNRYRFKVKEDDPKGLFLLMGAKMHWTS 302 (529)
T ss_dssp ------CCCCSCTTSSCCCCCCHHHHHHHTTEEEEC--
T ss_pred hcchhhccchhhhccccccchhHHHHHHHcCCeEEecC
Confidence 7776542 24778999999987654
No 12
>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=48.35 E-value=28 Score=28.96 Aligned_cols=82 Identities=6% Similarity=0.047 Sum_probs=56.2
Q ss_pred ccccccccccCccccCCCceeEEEEEeeCCCceEEEecCCCCCCCHHHHHHHHHHHHHhcCCCCCCeeeeeHHHHH--HH
Q 020416 98 ITEWELDFCSRPILDIRGKKIWELVVCDGSLSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRSQMQ--TI 175 (326)
Q Consensus 98 m~iWELDFYSRPilD~~GKKlWELLICDs~~~F~y~~~CP~s~VNS~WL~~AL~~ai~~~~~~~P~~IRfFR~QM~--nm 175 (326)
...|++||- ++ |+ .+=|+|.|.-+.+.+...+++ .++.-+..+|..++...|. | .|+.=|..-. ..
T Consensus 59 ~~~w~~D~~--~~----~~-~y~l~~vD~~sr~~~~~~~~~--~~~~~~~~~l~~~~~~~g~--~-~i~sDnG~~F~s~~ 126 (210)
T 3f9k_A 59 LGTWQMDCT--HL----EG-KIIIVAVHVASGFIEAEVIPQ--ESGRQTALFLLKLASRWPI--T-HLHTDNGANFTSQE 126 (210)
T ss_dssp TTEEEEEEE--EE----TT-EEEEEEEETTTTEEEEEEESS--CCHHHHHHHHHHHHTTSCC--S-EEEECCCTTTSSHH
T ss_pred CCeEeEeec--cc----CC-eEEEEEEEcCCCcEEEEEeCC--cchHHHHHHHHHHHHHcCC--C-EEEeCCCchhhHHH
Confidence 358999982 22 33 467778887777888777776 5888889999988876542 4 4754332211 35
Q ss_pred HHHHHhhCCCcccccc
Q 020416 176 ITKACKELDIKPIPSK 191 (326)
Q Consensus 176 I~kAc~eLgI~v~PSR 191 (326)
++..|+++||+..-|+
T Consensus 127 ~~~~~~~~gi~~~~s~ 142 (210)
T 3f9k_A 127 VKMVAWWIGIEQSFGV 142 (210)
T ss_dssp HHHHHHHHTCEEEESS
T ss_pred HHHHHHHCCCceeeCC
Confidence 6788999999877654
No 13
>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=43.43 E-value=64 Score=26.50 Aligned_cols=81 Identities=15% Similarity=0.128 Sum_probs=52.3
Q ss_pred cccccccccCccccCCCceeEEEEEeeCCCceEEEecCCCCCCCHHHHHHHHHHHHHhcCCCCCCeeeeeHHHH--HHHH
Q 020416 99 TEWELDFCSRPILDIRGKKIWELVVCDGSLSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRSQM--QTII 176 (326)
Q Consensus 99 ~iWELDFYSRPilD~~GKKlWELLICDs~~~F~y~~~CP~s~VNS~WL~~AL~~ai~~~~~~~P~~IRfFR~QM--~nmI 176 (326)
..|++||-.- |++ +=|++.|.-+.+.+...+++. ++.-+..++.+++...| +..|+.=|..- ...+
T Consensus 59 ~~w~~D~~~~------~~~-~~l~~vD~~Sr~~~~~~~~~~--~~~~~~~~~~~~~~~~~---~~~i~sDnG~~f~s~~~ 126 (212)
T 1k6y_A 59 GIWQLDCTHL------EGK-VILVAVHVASGYIEAEVIPAE--TGQETAYFLLKLAGRWP---VKTVHTDNGSNFTSTTV 126 (212)
T ss_dssp TEEEEEEEEE------TTE-EEEEEEETTTTEEEEEEESSC--CHHHHHHHHHHHHHHSC---CCEEECCCSTTTTSHHH
T ss_pred CeeeEEEecC------CCe-EEEEEEEccCCcEEEEEecCc--chHHHHHHHHHHHHhcC---CeEEEcCCCcccccHHH
Confidence 5899999642 554 556666777778888777765 45556667777666532 46665422211 2346
Q ss_pred HHHHhhCCCcccccc
Q 020416 177 TKACKELDIKPIPSK 191 (326)
Q Consensus 177 ~kAc~eLgI~v~PSR 191 (326)
+..|+++||...-|+
T Consensus 127 ~~~~~~~gi~~~~s~ 141 (212)
T 1k6y_A 127 KAACDWAGIKQEDGI 141 (212)
T ss_dssp HHHHHHHTCEECCC-
T ss_pred HHHHHHCCCeeeECC
Confidence 788999999987664
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=36.40 E-value=1.2e+02 Score=25.67 Aligned_cols=82 Identities=16% Similarity=0.116 Sum_probs=52.4
Q ss_pred ccccccccccCccccCCCceeEEEEEeeCCCceEEEecCCCCCCCHHHHHHHHHHHHHhcCCCCCCeeeeeHHHH--HHH
Q 020416 98 ITEWELDFCSRPILDIRGKKIWELVVCDGSLSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRSQM--QTI 175 (326)
Q Consensus 98 m~iWELDFYSRPilD~~GKKlWELLICDs~~~F~y~~~CP~s~VNS~WL~~AL~~ai~~~~~~~P~~IRfFR~QM--~nm 175 (326)
...|++||-.- +| | +=|++.|.-+.+.+...+++... ..+..++..++... .|..|+.=|..- ...
T Consensus 9 ~~~w~~D~t~~-----~g-~-~~l~~vD~~Sr~i~~~~~~~~~~--~~~~~~~~~~~~~~---~~~~i~sDnG~eF~s~~ 76 (239)
T 1ex4_A 9 PGIWQLDCTHL-----EG-K-VILVAVHVASGYIEAEVIPAETG--QETAYFLLKLAGRW---PVKTIHTDNGSNFTGAT 76 (239)
T ss_dssp GGEEEEEEEEE-----TT-E-EEEEEECTTTCCEEEECCSSSST--THHHHHHHHHHHHS---CCCEEEECCCHHHHCHH
T ss_pred CCEEEEecccc-----CC-e-EEEEEEECCCCeEEEEEeCCCCH--HHHHHHHHHHHHhc---CCcEEEecCcHHHHHHH
Confidence 35899999532 34 3 34555577778888888886543 33555566565542 256776544322 235
Q ss_pred HHHHHhhCCCcccccc
Q 020416 176 ITKACKELDIKPIPSK 191 (326)
Q Consensus 176 I~kAc~eLgI~v~PSR 191 (326)
++..|+++||...-|+
T Consensus 77 ~~~~~~~~gI~~~~s~ 92 (239)
T 1ex4_A 77 VRAACDWAGIKQEDGI 92 (239)
T ss_dssp HHHHHTTTTCEECCCC
T ss_pred HHHHHHHCCCeEEECC
Confidence 7889999999887654
No 15
>4dyq_A Gene 1 protein; GP1, octamer, DNA-binding, viral protein; 1.50A {Shigella phage SF6} PDB: 4dyc_A 4dyr_A 3hef_A 4dzj_A 4dzp_A
Probab=25.74 E-value=33 Score=27.94 Aligned_cols=22 Identities=32% Similarity=0.785 Sum_probs=17.6
Q ss_pred HHHHHhhCCCccccccchHHHHHHHHH
Q 020416 176 ITKACKELDIKPIPSKRCLSLLLWLEE 202 (326)
Q Consensus 176 I~kAc~eLgI~v~PSRRT~aL~~WLeE 202 (326)
+..+|+..|| |||+| +++||.+
T Consensus 31 l~~i~~~~~~---ps~~T--~~~W~~~ 52 (140)
T 4dyq_A 31 LLKVCKRPGM---PDKST--VFRWLAK 52 (140)
T ss_dssp HHHHHTSTTC---CCHHH--HHHHHHH
T ss_pred HHHHHhcCCC---CCHHH--HHHHHHc
Confidence 5678999998 78876 5789876
No 16
>3txv_A Probable tagatose 6-phosphate kinase; structural genomics, PSI-biology, NEW YORK structural genomi research consortium, nysgrc; 2.80A {Sinorhizobium meliloti}
Probab=21.20 E-value=1.4e+02 Score=29.94 Aligned_cols=44 Identities=9% Similarity=0.207 Sum_probs=37.2
Q ss_pred CCHHHHHHHHHHHHHhcCCCCCCeeeeeHHH--------------HHHHHHHHHhhCCCcc
Q 020416 141 INSITLKEAIVAICDDLGVPIPEKIRFFRSQ--------------MQTIITKACKELDIKP 187 (326)
Q Consensus 141 VNS~WL~~AL~~ai~~~~~~~P~~IRfFR~Q--------------M~nmI~kAc~eLgI~v 187 (326)
.|..|++.+|+.|-+. ..|-.|.+=+.| ...|+..++++.|+++
T Consensus 29 ~n~e~i~Ail~aAee~---~sPVIIe~t~~qv~~~gGYtG~~p~~f~~~V~~~A~~~~vPv 86 (450)
T 3txv_A 29 AHPLVIEAAMLRAHRE---KAPVLIEATCNQVNQDGGYTGMTPEDFTRFVGAIADRIEFPR 86 (450)
T ss_dssp CCHHHHHHHHHHHHHS---CSCEEEEEETTTSCTTCTTTTCCHHHHHHHHHHHHHHTTCCG
T ss_pred CCHHHHHHHHHHHHHh---CCCEEEEcChhhHhhcCCCCCCCHHHHHHHHHHHHHHcCcCc
Confidence 8899999999988875 579999888765 4678999999999996
Done!