Query 048027
Match_columns 735
No_of_seqs 292 out of 1517
Neff 7.7
Searched_HMMs 29240
Date Mon Mar 25 09:21:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/048027.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/048027hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1wj2_A Probable WRKY transcrip 87.0 0.89 3E-05 37.1 5.1 39 226-264 38-76 (78)
2 2ayd_A WRKY transcription fact 86.6 0.83 2.8E-05 37.1 4.7 40 226-265 35-74 (76)
3 3l3u_A POL polyprotein; DNA in 81.0 8.2 0.00028 35.2 10.0 64 384-462 9-72 (163)
4 1cxq_A Avian sarcoma virus int 74.8 17 0.00058 33.1 10.1 70 384-463 11-80 (162)
5 1c0m_A Protein (integrase); HI 72.8 19 0.00067 35.3 10.7 70 384-463 10-79 (238)
6 3f9k_A Integrase; protein-prot 62.3 59 0.002 30.8 11.5 63 385-462 60-122 (210)
7 2rpr_A Flywch-type zinc finger 59.9 12 0.00042 30.9 5.1 44 214-264 27-73 (87)
8 3hot_A Transposable element ma 59.1 89 0.0031 32.0 13.1 62 396-460 185-252 (345)
9 1ex4_A Integrase; SH3-like dom 54.3 38 0.0013 33.1 8.6 64 385-463 10-73 (239)
10 2x78_A Integrase; viral protei 53.4 58 0.002 30.4 9.6 67 385-462 14-81 (200)
11 3kks_A Integrase, IN; beta-str 46.4 80 0.0027 27.6 8.9 65 385-464 3-67 (152)
12 2ezd_A High mobility group pro 44.4 12 0.0004 23.3 1.7 15 715-729 2-16 (26)
13 1k6y_A Integrase; HIV-1, domai 38.2 2.5E+02 0.0086 26.1 12.5 64 384-462 58-121 (212)
14 1bco_A MUA domain II, bacterio 35.8 74 0.0025 32.8 7.7 72 384-463 16-95 (327)
15 1wjn_A Tubulin-folding protein 31.4 29 0.00098 29.0 2.9 58 31-88 10-73 (97)
16 1fme_A FSD-EY peptide; beta-BE 30.1 36 0.0012 20.9 2.3 20 190-209 6-25 (28)
17 3av9_A Integrase, IN; protein- 23.4 1.9E+02 0.0066 26.4 7.5 66 383-463 28-93 (183)
18 2lju_A Putative oxidoreductase 23.3 54 0.0018 28.3 3.1 29 191-223 61-89 (108)
19 3hph_A Integrase, IN; protein- 22.8 2.5E+02 0.0084 26.4 8.4 65 385-464 61-125 (219)
20 2bw3_A Transposase; DNA recomb 22.4 2.7E+02 0.0091 30.5 9.7 70 413-489 130-201 (534)
No 1
>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=86.99 E-value=0.89 Score=37.10 Aligned_cols=39 Identities=10% Similarity=0.125 Sum_probs=33.9
Q ss_pred eEEEEeecCCCceEEEEEEecCCceEEEeeecCCCccCC
Q 048027 226 LISCECSNLMCDWKVSAAKVRKGNVFVLKEIIPNHTCKR 264 (735)
Q Consensus 226 r~~~~C~~~gCpwrv~as~~~~~~~~~V~~~~~~HnC~~ 264 (735)
|--++|...||+++-.+.+...+....+++|..+|||..
T Consensus 38 RsYYrCt~~gC~a~K~Ver~~~d~~~~~~tY~G~H~H~~ 76 (78)
T 1wj2_A 38 RSYYKCTTPGCGVRKHVERAATDPKAVVTTYEGKHNHDL 76 (78)
T ss_dssp EEEEEEECSSCEEEEEEEEETTTTSEEEEEEESCCSSCC
T ss_pred eEEeecCcCCCCcEeeEEEEcCCCCEEEEEEeeEcCCCC
Confidence 456899999999999999877777778889999999976
No 2
>2ayd_A WRKY transcription factor 1; beta strands, zinc finger; 1.60A {Arabidopsis thaliana}
Probab=86.62 E-value=0.83 Score=37.12 Aligned_cols=40 Identities=13% Similarity=0.154 Sum_probs=34.6
Q ss_pred eEEEEeecCCCceEEEEEEecCCceEEEeeecCCCccCCC
Q 048027 226 LISCECSNLMCDWKVSAAKVRKGNVFVLKEIIPNHTCKRH 265 (735)
Q Consensus 226 r~~~~C~~~gCpwrv~as~~~~~~~~~V~~~~~~HnC~~~ 265 (735)
|--++|+..||+++=.+.+..++....+++|.++|||...
T Consensus 35 RsYYrCt~~gC~a~K~Ver~~~d~~~~~~tY~G~H~H~~p 74 (76)
T 2ayd_A 35 RSYYRCSSPGCPVKKHVERSSHDTKLLITTYEGKHDHDMP 74 (76)
T ss_dssp EEEEEECSTTCCCEEEEEECSSSTTEEEEEEESCCSSCCC
T ss_pred eeEeEcCCCCCCceeeEEEECCCCCEEEEEEccCcCCCCC
Confidence 5568999999999999998877778888999999999863
No 3
>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=80.97 E-value=8.2 Score=35.21 Aligned_cols=64 Identities=13% Similarity=0.081 Sum_probs=44.4
Q ss_pred CcEEEEcCeEeecCCCCceEEEEEEcCCCCEEEEEEEecccCCHHHHHHHHHHHHHhhccCcCCCCCcEEEEecCchhH
Q 048027 384 RRLVIVDGWEIDSPYKSVMLVAVCRDGNNAVLPIAFCEVQEENLDSWSFFLKNLYEGLRMDYMDYGKGICIMCDGDNGV 462 (735)
Q Consensus 384 ~~vi~iD~T~~~~~y~~~ll~avg~d~~~~~~plafalv~~Et~esw~WfL~~l~~~~~~~~~~~~~p~~iisD~~~~l 462 (735)
-.++.+|.|+..++ ++++.+|...+.. .++.+ .+++.+.-.-+|..+...++ +..|.||+....
T Consensus 9 ~~~w~~D~t~~~g~-----y~~~~iD~~sr~~-~~~~~-~~~~~~~~~~~l~~~~~~~~--------~~~i~sD~G~~f 72 (163)
T 3l3u_A 9 PGIWQLDCTHLEGK-----VILVAVHVASGYI-EAEVI-PAETGQETAYFLLKLAGRWP--------VKTVHTDNGSNF 72 (163)
T ss_dssp TTEEEEEEEEETTE-----EEEEEEETTTCCE-EEEEE-SSCCHHHHHHHHHHHHHHSC--------CCEEEECCCGGG
T ss_pred CCEEEEEecccCCc-----EEEEEEecCCCcE-EEEEe-CCCcHHHHHHHHHHHHHHcC--------CcEEeecChHhh
Confidence 46889999998543 5677778776654 66665 56677776666666555543 468999998764
No 4
>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=74.82 E-value=17 Score=33.12 Aligned_cols=70 Identities=10% Similarity=-0.098 Sum_probs=47.5
Q ss_pred CcEEEEcCeEeecCCCCceEEEEEEcCCCCEEEEEEEecccCCHHHHHHHHHHHHHhhccCcCCCCCcEEEEecCchhHH
Q 048027 384 RRLVIVDGWEIDSPYKSVMLVAVCRDGNNAVLPIAFCEVQEENLDSWSFFLKNLYEGLRMDYMDYGKGICIMCDGDNGVD 463 (735)
Q Consensus 384 ~~vi~iD~T~~~~~y~~~ll~avg~d~~~~~~plafalv~~Et~esw~WfL~~l~~~~~~~~~~~~~p~~iisD~~~~l~ 463 (735)
..++.+|-|+.... +|..+.++.+|..-+. ++++.+- +.+.+.-.-+|+.+....+ .|..|.||+.....
T Consensus 11 ~~~~~~D~~~~~~~-~g~~yl~~~iD~~Sr~-i~~~~~~-~~~~~~v~~~l~~~~~~~g-------~p~~i~sDnG~~f~ 80 (162)
T 1cxq_A 11 LQIWQTDFTLEPRM-APRSWLAVTVDTASSA-IVVTQHG-RVTSVAAQHHWATAIAVLG-------RPKAIKTDNGSCFT 80 (162)
T ss_dssp CCEEEEEEEECGGG-TTSCEEEEEEETTTCC-EEEEEES-SCCHHHHHHHHHHHHHHHC-------CCSEEECCSCHHHH
T ss_pred CCEEEeeeeecccC-CCCEEEEEEEEcCCCe-EEEEECC-CccHHHHHHHHHHHHHHHC-------CCeEEEeCCchhhh
Confidence 45788998886543 3456667778876554 4666665 6777776666666555544 36799999988764
No 5
>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=72.76 E-value=19 Score=35.30 Aligned_cols=70 Identities=10% Similarity=-0.099 Sum_probs=49.1
Q ss_pred CcEEEEcCeEeecCCCCceEEEEEEcCCCCEEEEEEEecccCCHHHHHHHHHHHHHhhccCcCCCCCcEEEEecCchhHH
Q 048027 384 RRLVIVDGWEIDSPYKSVMLVAVCRDGNNAVLPIAFCEVQEENLDSWSFFLKNLYEGLRMDYMDYGKGICIMCDGDNGVD 463 (735)
Q Consensus 384 ~~vi~iD~T~~~~~y~~~ll~avg~d~~~~~~plafalv~~Et~esw~WfL~~l~~~~~~~~~~~~~p~~iisD~~~~l~ 463 (735)
..++.+|.|+.... ++..+.++.+|..-+ +++|+.+- +++.+.-.-+|+.+....+ .|.+|.||+.....
T Consensus 10 ~~~w~~D~~~~~~~-~g~~yl~~~iD~~Sr-~i~~~~~~-~~~~~~v~~~l~~~~~~~g-------~p~~i~sDnG~~f~ 79 (238)
T 1c0m_A 10 LQIWQTDFTLEPRM-APRSWLAVTVDTASS-AIVVTQHG-RVTSVAVQHHWATAIAVLG-------RPKAIKTDNGSCFT 79 (238)
T ss_dssp TSEEEEEEEECGGG-CSSCEEEEEEETTTC-CEEEEEES-SCCHHHHHHHHHHHHHHHC-------CCSEEEECSCHHHH
T ss_pred CCEEEEeecccccc-CCCEEEEEEEECCCC-CEEEEEcc-CCCHHHHHHHHHHHHHHhC-------CCcEEEECCCCccc
Confidence 35889999987543 344666677777554 45567765 8888877777776666554 37899999988763
No 6
>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=62.31 E-value=59 Score=30.83 Aligned_cols=63 Identities=13% Similarity=0.044 Sum_probs=41.5
Q ss_pred cEEEEcCeEeecCCCCceEEEEEEcCCCCEEEEEEEecccCCHHHHHHHHHHHHHhhccCcCCCCCcEEEEecCchhH
Q 048027 385 RLVIVDGWEIDSPYKSVMLVAVCRDGNNAVLPIAFCEVQEENLDSWSFFLKNLYEGLRMDYMDYGKGICIMCDGDNGV 462 (735)
Q Consensus 385 ~vi~iD~T~~~~~y~~~ll~avg~d~~~~~~plafalv~~Et~esw~WfL~~l~~~~~~~~~~~~~p~~iisD~~~~l 462 (735)
.++.+|-|+..++ ++++.+|..-+ ++.++.+- +++.+...-+|..+....+ .| .|.||+....
T Consensus 60 ~~w~~D~~~~~~~-----y~l~~vD~~sr-~~~~~~~~-~~~~~~~~~~l~~~~~~~g-------~~-~i~sDnG~~F 122 (210)
T 3f9k_A 60 GTWQMDCTHLEGK-----IIIVAVHVASG-FIEAEVIP-QESGRQTALFLLKLASRWP-------IT-HLHTDNGANF 122 (210)
T ss_dssp TEEEEEEEEETTE-----EEEEEEETTTT-EEEEEEES-SCCHHHHHHHHHHHHTTSC-------CS-EEEECCCTTT
T ss_pred CeEeEeecccCCe-----EEEEEEEcCCC-cEEEEEeC-CcchHHHHHHHHHHHHHcC-------CC-EEEeCCCchh
Confidence 4788898888543 45667777666 56666554 4677776666665544443 24 4999998764
No 7
>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=59.85 E-value=12 Score=30.87 Aligned_cols=44 Identities=9% Similarity=0.185 Sum_probs=32.1
Q ss_pred CcEEEEeeecCceEEEEeec---CCCceEEEEEEecCCceEEEeeecCCCccCC
Q 048027 214 GIKLCVMENTSTLISCECSN---LMCDWKVSAAKVRKGNVFVLKEIIPNHTCKR 264 (735)
Q Consensus 214 ~f~~~~~ks~~~r~~~~C~~---~gCpwrv~as~~~~~~~~~V~~~~~~HnC~~ 264 (735)
|+.|...+....+.--+|.. .+|+++|.... .. +. ....|||++
T Consensus 27 Gy~Y~~~~~~~~~~yWrC~~~~~~kCrARi~T~~---~~---~~-~~~~HnH~p 73 (87)
T 2rpr_A 27 SFLYRKEKAAGEKVYWMCRDQARLGCRSRAITQG---HR---IM-VMRSHCHQP 73 (87)
T ss_dssp TEEEEEEEECSSCEEEEEGGGTTSCCCCEEEEET---TE---EE-ECSCCSSCC
T ss_pred CEEEEeeecCCCcEEEEecCCCCCCCCEEEEEcC---CC---EE-CCCCcCCCC
Confidence 67777777777778899986 48999988753 22 22 456799987
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=59.09 E-value=89 Score=32.02 Aligned_cols=62 Identities=16% Similarity=0.224 Sum_probs=40.5
Q ss_pred cCCCCceEEEEEEcCCCCEEEEEEEecc---cCCHHHHHHHHHHHHHhhccCcCCC---CCcEEEEecCch
Q 048027 396 SPYKSVMLVAVCRDGNNAVLPIAFCEVQ---EENLDSWSFFLKNLYEGLRMDYMDY---GKGICIMCDGDN 460 (735)
Q Consensus 396 ~~y~~~ll~avg~d~~~~~~plafalv~---~Et~esw~WfL~~l~~~~~~~~~~~---~~p~~iisD~~~ 460 (735)
..+.+.++++.+.+..| .+++.+++ +-+.+.|.-+|+.+...+....... ..+.+|+.|...
T Consensus 185 ~~~~~~~~v~~~~~~~g---~~~~~~~~~~~~~~~~~y~~~L~~~~~~~~~~~p~~~~~~~~~~~~~Dna~ 252 (345)
T 3hot_A 185 NRFGKKTMLCVWWDQSG---VIYYELLKPGETVNAARYQQQLINLNRALQRKRPEYQKRQHRVIFLHDNAP 252 (345)
T ss_dssp CTTCCEEEEEEEEESSS---EEEEEEECSSCCCCHHHHHHHHHHHHHHHHHHSTTCC---CCCEEECCCCT
T ss_pred cCcCCcEEEEEEEcccC---ceeeEecCCCCcccHHHHHHHHHHHHHHHHHhchhhhcCCCceEEEECCCC
Confidence 34666777778888877 56777766 5688899888888765542110000 136789999864
No 9
>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=54.29 E-value=38 Score=33.10 Aligned_cols=64 Identities=16% Similarity=0.064 Sum_probs=37.0
Q ss_pred cEEEEcCeEeecCCCCceEEEEEEcCCCCEEEEEEEecccCCHHHHHHHHHHHHHhhccCcCCCCCcEEEEecCchhHH
Q 048027 385 RLVIVDGWEIDSPYKSVMLVAVCRDGNNAVLPIAFCEVQEENLDSWSFFLKNLYEGLRMDYMDYGKGICIMCDGDNGVD 463 (735)
Q Consensus 385 ~vi~iD~T~~~~~y~~~ll~avg~d~~~~~~plafalv~~Et~esw~WfL~~l~~~~~~~~~~~~~p~~iisD~~~~l~ 463 (735)
.++.+|.|+..++ +.++.+|..-+ +++|+.+-...+.+....+++ +... ..+..|.||+.....
T Consensus 10 ~~w~~D~t~~~g~-----~~l~~vD~~Sr-~i~~~~~~~~~~~~~~~~~~~-~~~~--------~~~~~i~sDnG~eF~ 73 (239)
T 1ex4_A 10 GIWQLDCTHLEGK-----VILVAVHVASG-YIEAEVIPAETGQETAYFLLK-LAGR--------WPVKTIHTDNGSNFT 73 (239)
T ss_dssp GEEEEEEEEETTE-----EEEEEECTTTC-CEEEECCSSSSTTHHHHHHHH-HHHH--------SCCCEEEECCCHHHH
T ss_pred CEEEEeccccCCe-----EEEEEEECCCC-eEEEEEeCCCCHHHHHHHHHH-HHHh--------cCCcEEEecCcHHHH
Confidence 4889999998322 23344465444 456775554444443334443 3322 236899999988753
No 10
>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=53.42 E-value=58 Score=30.41 Aligned_cols=67 Identities=13% Similarity=0.091 Sum_probs=43.0
Q ss_pred cEEEEcC-eEeecCCCCceEEEEEEcCCCCEEEEEEEecccCCHHHHHHHHHHHHHhhccCcCCCCCcEEEEecCchhH
Q 048027 385 RLVIVDG-WEIDSPYKSVMLVAVCRDGNNAVLPIAFCEVQEENLDSWSFFLKNLYEGLRMDYMDYGKGICIMCDGDNGV 462 (735)
Q Consensus 385 ~vi~iD~-T~~~~~y~~~ll~avg~d~~~~~~plafalv~~Et~esw~WfL~~l~~~~~~~~~~~~~p~~iisD~~~~l 462 (735)
.++.+|- ++.... +|..++++.+|..-+. .+++.+ .+.+.+...-+|+.+ +.. ..|..|.||+....
T Consensus 14 ~~~~~D~~~~~~~~-~g~~y~~~~iD~~Sr~-~~~~~~-~~~~~~~~~~~l~~~---~~~-----g~p~~i~sDnG~~f 81 (200)
T 2x78_A 14 DKFFIDYIGPLPPS-QGYLYVLVVVDGMTGF-TWLYPT-KAPSTSATVKSLNVL---TSI-----AIPRVIHSDQGAAF 81 (200)
T ss_dssp SEEEEEEECCCSCB-TTBCEEEEEEETTTCC-EEEEEE-SSSCHHHHHHHHHHH---TTT-----CCCSEEEECSCHHH
T ss_pred cEEEEEEeCCCccC-CCCeEEEEEEeCCCCc-EEEEEC-CCCCHHHHHHHHHHH---HHh-----CCCcEEEecCCcce
Confidence 5677785 344332 5667777888876554 456666 777777655555433 322 45889999998765
No 11
>3kks_A Integrase, IN; beta-strands flanked by alpha-helices, DNA binding protein; 2.20A {Bovine immunodeficiency virus} PDB: 3kkr_A
Probab=46.41 E-value=80 Score=27.63 Aligned_cols=65 Identities=14% Similarity=0.111 Sum_probs=44.6
Q ss_pred cEEEEcCeEeecCCCCceEEEEEEcCCCCEEEEEEEecccCCHHHHHHHHHHHHHhhccCcCCCCCcEEEEecCchhHHH
Q 048027 385 RLVIVDGWEIDSPYKSVMLVAVCRDGNNAVLPIAFCEVQEENLDSWSFFLKNLYEGLRMDYMDYGKGICIMCDGDNGVDE 464 (735)
Q Consensus 385 ~vi~iD~T~~~~~y~~~ll~avg~d~~~~~~plafalv~~Et~esw~WfL~~l~~~~~~~~~~~~~p~~iisD~~~~l~~ 464 (735)
.++.+|.|+..+ .++++.+|..-+.. +++.+ .+++.+...-+|..+.... . |..|.||+......
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 578899998832 35667777766554 56655 4777777666665544433 4 78999999987654
No 12
>2ezd_A High mobility group protein HMG-I/HMG-Y; DNA binding protein, minor groove DNA binding, transcriptional CO-activator, architectural factor; HET: DNA; NMR {Homo sapiens} SCOP: j.10.1.1 PDB: 2eze_A*
Probab=44.40 E-value=12 Score=23.30 Aligned_cols=15 Identities=7% Similarity=0.009 Sum_probs=10.8
Q ss_pred CCCCCCCCCCCCccc
Q 048027 715 PLKRLIDPMNGDDET 729 (735)
Q Consensus 715 P~~~r~~GRpkk~r~ 729 (735)
|..+|++||||-+.+
T Consensus 2 ptpKrpRgRpkGSKN 16 (26)
T 2ezd_A 2 PTPKRPRGRPKGSKN 16 (26)
T ss_dssp CSCCCCSSCCTTCCC
T ss_pred CCCcCCCCCcCcccc
Confidence 445788999986554
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=38.18 E-value=2.5e+02 Score=26.15 Aligned_cols=64 Identities=13% Similarity=0.052 Sum_probs=36.7
Q ss_pred CcEEEEcCeEeecCCCCceEEEEEEcCCCCEEEEEEEecccCCHHHHHHHHHHHHHhhccCcCCCCCcEEEEecCchhH
Q 048027 384 RRLVIVDGWEIDSPYKSVMLVAVCRDGNNAVLPIAFCEVQEENLDSWSFFLKNLYEGLRMDYMDYGKGICIMCDGDNGV 462 (735)
Q Consensus 384 ~~vi~iD~T~~~~~y~~~ll~avg~d~~~~~~plafalv~~Et~esw~WfL~~l~~~~~~~~~~~~~p~~iisD~~~~l 462 (735)
..++.+|.|+..++ +.++.+|..-+ +++++.+- +.+.+...-++..+.... .+..|.||+....
T Consensus 58 ~~~w~~D~~~~~~~-----~~l~~vD~~Sr-~~~~~~~~-~~~~~~~~~~~~~~~~~~--------~~~~i~sDnG~~f 121 (212)
T 1k6y_A 58 PGIWQLDCTHLEGK-----VILVAVHVASG-YIEAEVIP-AETGQETAYFLLKLAGRW--------PVKTVHTDNGSNF 121 (212)
T ss_dssp TTEEEEEEEEETTE-----EEEEEEETTTT-EEEEEEES-SCCHHHHHHHHHHHHHHS--------CCCEEECCCSTTT
T ss_pred CCeeeEEEecCCCe-----EEEEEEEccCC-cEEEEEec-CcchHHHHHHHHHHHHhc--------CCeEEEcCCCccc
Confidence 45788888887222 23444465444 44555554 455555554444443332 3489999998764
No 14
>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=35.82 E-value=74 Score=32.76 Aligned_cols=72 Identities=14% Similarity=0.086 Sum_probs=50.6
Q ss_pred CcEEEEcCeEeecC---CCC---ceEEEEEEcCCCCEEEEEEEecccCCHHHHHHHHHHHHHhhccCcCCCCCcE--EEE
Q 048027 384 RRLVIVDGWEIDSP---YKS---VMLVAVCRDGNNAVLPIAFCEVQEENLDSWSFFLKNLYEGLRMDYMDYGKGI--CIM 455 (735)
Q Consensus 384 ~~vi~iD~T~~~~~---y~~---~ll~avg~d~~~~~~plafalv~~Et~esw~WfL~~l~~~~~~~~~~~~~p~--~ii 455 (735)
..++.+|+|++... ..| ...+.+.+|..-+. ++|+.+..+++.++..-.|+......+ .|. .|.
T Consensus 16 ~~~w~~D~t~~d~~~~~~~g~~~r~~l~~~iD~~SR~-ivg~~~~~~~~~~~v~~aL~~a~~~~G-------~P~~~~i~ 87 (327)
T 1bco_A 16 MQWINGDGYLHNVFVRWFNGDVIRPKTWFWQDVKTRK-ILGWRCDVSENIDSIRLSFMDVVTRYG-------IPEDFHIT 87 (327)
T ss_dssp TTEEEEEEEECSBCEECTTSCEECCEEEEEEETTTCC-EEEEEEESSCCHHHHHHHHHHHHHHHC-------EESSCEEE
T ss_pred CcEEEecCCEEEEEEECCCCccceeEEEEEEECCCCc-EEEEEEECCCCHHHHHHHHHHHHHhcC-------CCCCcEEE
Confidence 46889999876432 123 35566677776554 589999889999888777776655544 356 999
Q ss_pred ecCchhHH
Q 048027 456 CDGDNGVD 463 (735)
Q Consensus 456 sD~~~~l~ 463 (735)
+|+.....
T Consensus 88 sDnG~~f~ 95 (327)
T 1bco_A 88 IDNTRGAA 95 (327)
T ss_dssp CCCTTSTT
T ss_pred eeCchhhc
Confidence 99987653
No 15
>1wjn_A Tubulin-folding protein TBCE; ubiquitin-like domain, progressive motor neuropathy, structural genomics; NMR {Mus musculus} SCOP: d.15.1.1
Probab=31.36 E-value=29 Score=29.03 Aligned_cols=58 Identities=9% Similarity=-0.025 Sum_probs=40.8
Q ss_pred ccccccccccccccccceee--ccccchhHHHhhhccCCC-CCccccccC---chhcccccccc
Q 048027 31 VKVQQCCGHVYGGSSSGVQL--QMPYGQCTIAIDSKYTSD-QPRGVHISD---TEVINDLKDVD 88 (735)
Q Consensus 31 ~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~-~~~~~~~~~---~~~~~~~~~~~ 88 (735)
+.+++.|....+|..-.+.+ +||.+++-.++...+++. .-.++.|.+ +....+|+||+
T Consensus 10 v~l~I~~~~~~~~~~~e~~l~~~~TV~~LK~~i~~~~gip~~~q~L~~~~~~~~~~~~~L~~d~ 73 (97)
T 1wjn_A 10 LTLKIKCSNQPERQILEKQLPDSMTVQKVKGLLSRLLKVPVSELLLSYESSKMPGREIELENDL 73 (97)
T ss_dssp EEEEEEESSCSSSCCEEEEEETTSBHHHHHHHHHTTTTCCTTTCEEEEECTTSCSCEEECCCSS
T ss_pred EEEEEEecCCCCCcEEEEECCCCCCHHHHHHHHHHHHCCChhHeEEEEEcCCCCceeeccCCCc
Confidence 55666666556665544444 899999999999999987 888888863 33455565443
No 16
>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=30.14 E-value=36 Score=20.94 Aligned_cols=20 Identities=25% Similarity=0.341 Sum_probs=17.3
Q ss_pred CCCCCeeCCHHHHHHHHHHH
Q 048027 190 MELGQRFKDEFHFRRAVEIQ 209 (735)
Q Consensus 190 l~vG~~F~s~ee~k~ai~~y 209 (735)
-+.|.+|.+..|++.+|..|
T Consensus 6 kykgrtfrnekelrdfiekf 25 (28)
T 1fme_A 6 KYKGRTFRNEKELRDFIEKF 25 (28)
T ss_dssp ESSSCEECCHHHHHHHHHHC
T ss_pred hhcccccccHHHHHHHHHHh
Confidence 36799999999999998765
No 17
>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=23.37 E-value=1.9e+02 Score=26.43 Aligned_cols=66 Identities=14% Similarity=0.072 Sum_probs=39.4
Q ss_pred CCcEEEEcCeEeecCCCCceEEEEEEcCCCCEEEEEEEecccCCHHHHHHHHHHHHHhhccCcCCCCCcEEEEecCchhH
Q 048027 383 SRRLVIVDGWEIDSPYKSVMLVAVCRDGNNAVLPIAFCEVQEENLDSWSFFLKNLYEGLRMDYMDYGKGICIMCDGDNGV 462 (735)
Q Consensus 383 ~~~vi~iD~T~~~~~y~~~ll~avg~d~~~~~~plafalv~~Et~esw~WfL~~l~~~~~~~~~~~~~p~~iisD~~~~l 462 (735)
-..++.+|.|+..++| + ++.+|..-+.. +|+.+ .+++.+...-++..+....+ +..|.||+....
T Consensus 28 p~~~w~~D~~~~~g~~---~--l~~vD~~Sr~~-~~~~~-~~~~~~~~~~~~~~~~~~~~--------~~~i~sDnG~ef 92 (183)
T 3av9_A 28 SPGIWQLDCTHLEGKV---I--LVAVHVASGYI-EAEVI-PAETGQETAYFLLKLAGRWP--------VKTVHTDNGSNF 92 (183)
T ss_dssp CTTEEEEEEEEETTEE---E--EEEEETTTTEE-EEEEE-SSCCHHHHHHHHHHHHHHSC--------CCEEECSSHHHH
T ss_pred CCCEEEEeccccCCcE---E--EEEEECCCCCE-EEEEe-CCccchHHHHHHHHHHHHcC--------CcEEEecCchhc
Confidence 3468889988873322 3 34447655554 66655 45555555444444433332 488999998876
Q ss_pred H
Q 048027 463 D 463 (735)
Q Consensus 463 ~ 463 (735)
.
T Consensus 93 ~ 93 (183)
T 3av9_A 93 T 93 (183)
T ss_dssp H
T ss_pred c
Confidence 4
No 18
>2lju_A Putative oxidoreductase; structural genomics, seattle structural GENO center for infectious disease, ssgcid; NMR {Ehrlichia chaffeensis}
Probab=23.35 E-value=54 Score=28.33 Aligned_cols=29 Identities=14% Similarity=0.131 Sum_probs=23.6
Q ss_pred CCCCeeCCHHHHHHHHHHHHHHcCcEEEEeeec
Q 048027 191 ELGQRFKDEFHFRRAVEIQAMRDGIKLCVMENT 223 (735)
Q Consensus 191 ~vG~~F~s~ee~k~ai~~yAi~~~f~~~~~ks~ 223 (735)
.+.+.|.|+|++ ..||.++|..|.|..-.
T Consensus 61 qv~L~F~skE~A----iayAek~G~~y~V~ep~ 89 (108)
T 2lju_A 61 QVCLSFTTRELA----IAYAVAHKIDYTVLQDN 89 (108)
T ss_dssp CSCEEESSHHHH----HHHHHHTTCEEEEECSS
T ss_pred cceEecCCHHHH----HHHHHHcCCEEEEecCC
Confidence 456889999998 46899999999987543
No 19
>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=22.80 E-value=2.5e+02 Score=26.42 Aligned_cols=65 Identities=12% Similarity=0.070 Sum_probs=42.9
Q ss_pred cEEEEcCeEeecCCCCceEEEEEEcCCCCEEEEEEEecccCCHHHHHHHHHHHHHhhccCcCCCCCcEEEEecCchhHHH
Q 048027 385 RLVIVDGWEIDSPYKSVMLVAVCRDGNNAVLPIAFCEVQEENLDSWSFFLKNLYEGLRMDYMDYGKGICIMCDGDNGVDE 464 (735)
Q Consensus 385 ~vi~iD~T~~~~~y~~~ll~avg~d~~~~~~plafalv~~Et~esw~WfL~~l~~~~~~~~~~~~~p~~iisD~~~~l~~ 464 (735)
.++.+|-|+..++ ++++.+|..-+.. .++.+ .+++.+...-+|..+.... . |..|.||+......
T Consensus 61 ~~w~~D~t~~~~~-----y~~~~iD~~Sr~~-~~~~~-~~~~~~~~~~~l~~~~~~~-------g-p~~i~sDnG~~F~s 125 (219)
T 3hph_A 61 DHWQVDYTHYEDK-----IILVWVETNSGLI-YAERV-KGETGQEFRVQTMKWYAMF-------A-PKSLQSDNGPAFVA 125 (219)
T ss_dssp CEEEEEEEEETTE-----EEEEEEETTTCCE-EEEEE-SCCCHHHHHHHHHHHHHHH-------C-CCEEEECCCHHHHS
T ss_pred ceEEEEEecCCCE-----EEEEEEeCCCCcE-EEEEe-CCCCHHHHHHHHHHHHHHh-------C-CcEEEeCCCchhhh
Confidence 5778888876432 5667777776655 55554 5666666655555544433 4 78999999987753
No 20
>2bw3_A Transposase; DNA recombination, transposition; 2.0A {Musca domestica} SCOP: a.270.1.1 c.55.3.12 PDB: 2bw3_B
Probab=22.38 E-value=2.7e+02 Score=30.45 Aligned_cols=70 Identities=10% Similarity=0.183 Sum_probs=48.8
Q ss_pred CEEEEEEEecc--cCCHHHHHHHHHHHHHhhccCcCCCCCcEEEEecCchhHHHHHHhhCCCCeeecccchHHHHHHhh
Q 048027 413 AVLPIAFCEVQ--EENLDSWSFFLKNLYEGLRMDYMDYGKGICIMCDGDNGVDEAVSEFLPYAQYRQCCFSIYNKLMKQ 489 (735)
Q Consensus 413 ~~~plafalv~--~Et~esw~WfL~~l~~~~~~~~~~~~~p~~iisD~~~~l~~Ai~~vfP~a~h~~C~~Hi~~N~~~~ 489 (735)
+..+|++.-++ ..+.++..-.+..+.+..+..+ ..-..++||....+..|++. ..|..|..|.+.-+.+.
T Consensus 130 ~~~~L~~~~~~~~~~t~~~i~~~i~~~l~~~~l~~---~~~v~~vtDnasn~~~~~~~----~~~i~C~~H~lnLi~~~ 201 (534)
T 2bw3_A 130 RDLILGLKSLDFERSTAENIYKKLKAIFSQFNVED---LSSIKFVTDRGANVVKSLAN----NIRINCSSHLLSNVLEN 201 (534)
T ss_dssp EEEEEEEEEECGGGCSHHHHHHHHHHHHHTTTCCC---CTTCEEEECCCHHHHHHTTT----SEEEECHHHHHHHHHHH
T ss_pred EEEEEeEeecCCCCCCHHHHHHHHHHHHHHcCCCc---ccceeEECCCHHHHHHHHhc----CcccccHHHHHHHHHHH
Confidence 34567777676 3677776666666655555421 23567899999998888765 36899999998877654
Done!