Query 002828
Match_columns 876
No_of_seqs 447 out of 2011
Neff 8.7
Searched_HMMs 13730
Date Mon Mar 25 03:14:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002828.a3m -d /work/01045/syshi/HHdatabase/scop70.hhm -o /work/01045/syshi/hhsearch_scop/002828hhsearch_scop -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 d1tffa_ d.3.1.11 (A:) Ubiquiti 99.0 2.2E-10 1.6E-14 114.8 8.6 97 730-836 129-226 (228)
2 d1wj2a_ g.79.1.1 (A:) WRKY DNA 96.0 0.0058 4.2E-07 46.4 5.9 59 59-141 12-70 (71)
3 d1cxqa_ c.55.3.2 (A:) Retrovir 46.0 34 0.0025 28.6 8.6 69 254-328 8-76 (147)
4 d1exqa_ c.55.3.2 (A:) Retrovir 45.3 14 0.001 31.8 5.7 66 253-329 3-68 (154)
5 d1ijwc_ a.4.1.2 (C:) HIN recom 30.9 29 0.0021 23.3 4.1 38 151-195 4-41 (47)
6 d1yvua2 c.55.3.10 (A:315-706) 22.5 79 0.0058 31.5 7.7 71 255-325 184-258 (392)
7 d1c6va_ c.55.3.2 (A:) Retrovir 20.0 80 0.0058 26.5 6.3 62 254-326 5-66 (159)
8 d2cpfa1 d.58.7.1 (A:362-446) P 17.6 1.2E+02 0.0084 22.3 6.0 55 242-309 12-66 (85)
9 d1u04a2 c.55.3.10 (A:324-770) 17.3 1.3E+02 0.0093 30.4 7.8 70 255-325 231-306 (447)
10 d1fxla2 d.58.7.1 (A:119-203) H 15.1 1.2E+02 0.0085 22.4 5.4 64 240-319 18-82 (85)
No 1
>d1tffa_ d.3.1.11 (A:) Ubiquitin thiolesterase protein OTUB2 (Otubain-2) {Human (Homo sapiens) [TaxId: 9606]}
Probab=99.01 E-value=2.2e-10 Score=114.77 Aligned_cols=97 Identities=8% Similarity=0.046 Sum_probs=70.8
Q ss_pred HHHHHHHHHHhhhhhhhhhhcCHHHHHHHHhh-cCCCCCCCCcccccccCCchhhhhcccceeEEEEccCcceeeccCcc
Q 002828 730 VRRDLVDELQSHYDDYIQLYGDAEIARELLHS-LSYSESNPGIEHRMIMPDTGHLIASRYNIVLMHLSQQQCFTFLPLRS 808 (876)
Q Consensus 730 vR~~l~~el~~~~~~y~~~~~~~~~~~~~~~~-l~~~~~~~~~~~w~~~~~~g~~iA~~~~~~v~~~~~~~~~~~~p~~~ 808 (876)
+|......++.+++.|.+++.++..+++++.. +. +.+.|.+...+ .++|.+|++||.++.......-++...
T Consensus 129 lR~l~s~~i~~~~~~y~~Fi~~~~~~~~yc~~~v~------~~~~e~d~ieI-~aLa~al~v~I~V~~~d~~~~~~~~~~ 201 (228)
T d1tffa_ 129 LRLLTSAFIRNRADFFRHFIDEEMDIKDFCTHEVE------PMATECDHIQI-TALSQALSIALQVEYVDEMDTALNHHV 201 (228)
T ss_dssp HHHHHHHHHHHTHHHHGGGSCTTSCHHHHHHHHTS------STTCCCCHHHH-HHHHHHHTCCEEEEECC-------CCC
T ss_pred HHHHHHHHHHHCHHHHHhHhcCCccHHHHHHHHHc------cccccCCcHHH-HHHHHHhCCCEEEEEecCCCCcccccc
Confidence 58888889999999999998776677777764 65 66789998887 599999999999987654444344333
Q ss_pred CCCCCCCCceEEEEEecCCceEEeeccC
Q 002828 809 VPLPRTSRKIVTIGFVNECQFVKVFMHP 836 (876)
Q Consensus 809 ~p~~~~~~~~i~l~~~~~~Hf~~~~~~~ 836 (876)
-|.+ ..++|+|.|- +.||+.||..+
T Consensus 202 ~~~~--~~~~I~Lly~-pgHYdiLY~~~ 226 (228)
T d1tffa_ 202 FPEA--ATPSVYLLYK-TSHYNILYAAD 226 (228)
T ss_dssp CCCC--SSCSEEEEEE-TTEEEEEEECC
T ss_pred CCCC--CCCEEEEEeC-CCCcccCccCC
Confidence 3333 3678999996 67999998754
No 2
>d1wj2a_ g.79.1.1 (A:) WRKY DNA-binding protein 4 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}
Probab=96.01 E-value=0.0058 Score=46.38 Aligned_cols=59 Identities=22% Similarity=0.307 Sum_probs=46.3
Q ss_pred cCEEEEEEeecCCCCCCCceEEEEEecCCccCCCCCCCCCCCCCCCCCcceeCCccEEEEeeeCCCCCeEEEEEccccCC
Q 002828 59 NGLVIVIKKSDVGGDGRRPRITFACERSGAYRRKYTEGQTPKRPKTTGTKKCGCPFLLKGHKLDTDDDWILKVVCGVHNH 138 (876)
Q Consensus 59 ~GF~v~~~~S~~~~~g~~~~~~~vC~r~G~~r~~~~~~~~~~~rr~~~s~~~gCp~~i~~~~~~~~~~w~V~~~~~~HNH 138 (876)
=||..|+--.+..++...-|.+|.|+. .||+|+=.+.+...++.-.++.+.++|||
T Consensus 12 DGy~WRKYGQK~ikgs~~pRsYYrCt~------------------------~~C~a~K~Vqr~~~d~~~~~vtY~G~H~h 67 (71)
T d1wj2a_ 12 DGYRWRKYGQKVVKGNPYPRSYYKCTT------------------------PGCGVRKHVERAATDPKAVVTTYEGKHNH 67 (71)
T ss_dssp SSSCBCCCEEECCTTCSSCEEEEEEEC------------------------SSCEEEEEEEEETTTTSEEEEEEESCCSS
T ss_pred CCcEecccCceeccCCCCceEEEEccc------------------------cCCCCcceEEEEcCCCCEEEEEEeeEeCC
Confidence 467777766666666666788899954 37999988888777888888899999999
Q ss_pred CCC
Q 002828 139 PVT 141 (876)
Q Consensus 139 ~~~ 141 (876)
++.
T Consensus 68 ~~P 70 (71)
T d1wj2a_ 68 DLP 70 (71)
T ss_dssp CCC
T ss_pred CCC
Confidence 763
No 3
>d1cxqa_ c.55.3.2 (A:) Retroviral integrase, catalytic domain {Rous sarcoma virus RSV [TaxId: 11886]}
Probab=46.01 E-value=34 Score=28.65 Aligned_cols=69 Identities=14% Similarity=0.079 Sum_probs=42.2
Q ss_pred ceEEEeccccCCCCCCeeEEEEeecCCCCeEEEEEEeeccCccchHHHHHHHHHHhhcCCCCCeEEEeeccHHHH
Q 002828 254 SVVMIDCTYKTSMYPFSFLEIVGATSTELTFSIAFAYLESERDDNYIWTLERLRSMMEDDALPRVIVTDKDLALM 328 (876)
Q Consensus 254 ~vl~iD~T~~tn~~~~~l~~~~g~~~~~~~~~va~al~~~E~~~s~~w~l~~l~~~~~~~~~P~~ivtD~d~al~ 328 (876)
+++.+|-|+.....+.. +.++.+|...+ +.+++ .+..++......+|..+.... ..|..|.||......
T Consensus 8 ~~w~~D~~~~~~~~~~~-~l~v~vD~~Sr-~i~~~-~~~~~t~~~~~~~l~~~~~~~---g~p~~i~sDnG~~F~ 76 (147)
T d1cxqa_ 8 QIWQTDFTLEPRMAPRS-WLAVTVDTASS-AIVVT-QHGRVTSVAAQHHWATAIAVL---GRPKAIKTDNGSCFT 76 (147)
T ss_dssp CEEEEEEEECGGGTTSC-EEEEEEETTTC-CEEEE-EESSCCHHHHHHHHHHHHHHH---CCCSEEECCSCHHHH
T ss_pred CEEEEEEEEecCCCCeE-EEEEEEecccc-eeccc-ccCccchHHHHHHHHHHHHHh---CCCeEEEeccccccc
Confidence 68899988775443333 33444554443 33444 456666665555555554443 359999999998764
No 4
>d1exqa_ c.55.3.2 (A:) Retroviral integrase, catalytic domain {Human immunodeficiency virus type 1 [TaxId: 11676]}
Probab=45.26 E-value=14 Score=31.83 Aligned_cols=66 Identities=18% Similarity=0.215 Sum_probs=43.7
Q ss_pred CceEEEeccccCCCCCCeeEEEEeecCCCCeEEEEEEeeccCccchHHHHHHHHHHhhcCCCCCeEEEeeccHHHHH
Q 002828 253 PSVVMIDCTYKTSMYPFSFLEIVGATSTELTFSIAFAYLESERDDNYIWTLERLRSMMEDDALPRVIVTDKDLALMN 329 (876)
Q Consensus 253 ~~vl~iD~T~~tn~~~~~l~~~~g~~~~~~~~~va~al~~~E~~~s~~w~l~~l~~~~~~~~~P~~ivtD~d~al~~ 329 (876)
|.++.+|.|+..|+ +.++.+|..-+ +..++. +.+++.+....+|..+... ..|++|.||......+
T Consensus 3 pg~W~~D~~~~~~k-----~ilv~vD~~Sr-~~~~~~-~~~~~~~~v~~~l~~~~~~----~~p~~I~sDnG~eF~s 68 (154)
T d1exqa_ 3 PGIWQLDCTHLEGK-----VILVAVHVASG-YIEAEV-IPAETGQETAYFLLKLAGR----WPVKTIHTDNGSNFTG 68 (154)
T ss_dssp GGEEEEEEEEETTE-----EEEEEEETTTT-EEEEEE-ESSSSHHHHHHHHHHHHHH----SCCCEEECCCCGGGTS
T ss_pred CCceeeEEEEECCE-----EEEEEEECcCC-cEEEEE-ecCcchHHHHhhhhhheec----cCCCEEEEcCCccccc
Confidence 34888999987665 34566776644 455554 4666777777666655433 2489999999987654
No 5
>d1ijwc_ a.4.1.2 (C:) HIN recombinase (DNA-binding domain) {Synthetic}
Probab=30.87 E-value=29 Score=23.26 Aligned_cols=38 Identities=8% Similarity=0.185 Sum_probs=29.8
Q ss_pred cCCCHHHHHHHHHHhhCCCChHHHHHHHHhcCCCccchHHHHHHH
Q 002828 151 GRLTEQEANILVDLSRSNISPKEILQTLKQRDMHNVSTIKAIYNA 195 (876)
Q Consensus 151 rrl~~~~k~~i~~l~~~~~~p~~I~~~l~~~~~~~~~t~kdi~n~ 195 (876)
+.+++++.+.+..|...|.+.++|...+. .....||++
T Consensus 4 ~~lt~~q~~~a~~l~~~G~s~~~iA~~~g-------VSr~TiYry 41 (47)
T d1ijwc_ 4 RAINKHEQEQISRLLEKGHPRQQLAIIFG-------IGVSTLYRY 41 (47)
T ss_dssp CSSCHHHHHHHHHHHHTTCCHHHHHHHHT-------CCHHHHHHH
T ss_pred CcCCHHHHHHHHHHHHCCCCHHHHHHHHC-------cCHHHHHhh
Confidence 46899999999999999999988886542 245566665
No 6
>d1yvua2 c.55.3.10 (A:315-706) Argonaute homologue Aq_1447 {Aquifex aeolicus [TaxId: 63363]}
Probab=22.47 E-value=79 Score=31.46 Aligned_cols=71 Identities=13% Similarity=-0.129 Sum_probs=39.7
Q ss_pred eEEEeccccCCCCCC-ee-EEEEeecCCCCeEEEEEEeeccCccchHHHHHHHHHHhh--cCCCCCeEEEeeccH
Q 002828 255 VVMIDCTYKTSMYPF-SF-LEIVGATSTELTFSIAFAYLESERDDNYIWTLERLRSMM--EDDALPRVIVTDKDL 325 (876)
Q Consensus 255 vl~iD~T~~tn~~~~-~l-~~~~g~~~~~~~~~va~al~~~E~~~s~~w~l~~l~~~~--~~~~~P~~ivtD~d~ 325 (876)
+|.+|.|+....-+. +. ..++..+..|..............++...-++..+.+.. ..+..|.-||.=+|-
T Consensus 184 iIGiDv~h~~~~~~~~~~v~~~~~~~~~g~~~~~~~~~~~~~~ee~~~~~~~~~l~~~~~~~~~~P~rIIi~RdG 258 (392)
T d1yvua2 184 FVGIDISRITRDGKTVNAVAFTKIFNSKGELVRYYLTSYPAFGEKLTEKAIGDVFSLLEKLGFKKGSKIVVHRDG 258 (392)
T ss_dssp EEEECEEECCCSSSCCCEEEEEEEECTTSCEEEEEEEEECSCTTHHHHHHHHHHHHHHHHTTCCTTCEEEEEESS
T ss_pred EEEEEEEecCCCCCcccEEEEEEEEcCCCCEEEEEEEecCCccHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Confidence 578999997644433 33 334456666766555444444444444444444444433 246678877765553
No 7
>d1c6va_ c.55.3.2 (A:) Retroviral integrase, catalytic domain {Simian immunodeficiency virus [TaxId: 11723]}
Probab=20.01 E-value=80 Score=26.53 Aligned_cols=62 Identities=19% Similarity=0.135 Sum_probs=37.1
Q ss_pred ceEEEeccccCCCCCCeeEEEEeecCCCCeEEEEEEeeccCccchHHHHHHHHHHhhcCCCCCeEEEeeccHH
Q 002828 254 SVVMIDCTYKTSMYPFSFLEIVGATSTELTFSIAFAYLESERDDNYIWTLERLRSMMEDDALPRVIVTDKDLA 326 (876)
Q Consensus 254 ~vl~iD~T~~tn~~~~~l~~~~g~~~~~~~~~va~al~~~E~~~s~~w~l~~l~~~~~~~~~P~~ivtD~d~a 326 (876)
-++.+|.|+..++ +.++.+|..- -+..++ .+.+++.+....+|..+.. ...|.+|.||....
T Consensus 5 g~W~~D~t~~~~k-----~il~~vD~~S-r~~~~~-~~~~~~a~~v~~~l~~~~~----~~~~~~I~sDnG~~ 66 (159)
T d1c6va_ 5 GTWQMDCTHLEGK-----IVIVAVHVAS-GFIEAE-VIPQETGRQTALFLLKLAG----RWPITHLHTDNGAN 66 (159)
T ss_dssp TEEEEEEEEETTE-----EEEEEECTTS-CCEEEE-ECSSCSHHHHHHHHHHHHT----TSCCCEEECCCCSS
T ss_pred CceeeEEEEECCE-----EEEEEEECCC-CeEEEE-EeeccCHHHHHHHHHHHhh----ccCCceeEecCCCc
Confidence 3788999987654 2344456543 345555 4566666665555544332 22356799999864
No 8
>d2cpfa1 d.58.7.1 (A:362-446) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}
Probab=17.61 E-value=1.2e+02 Score=22.26 Aligned_cols=55 Identities=11% Similarity=0.196 Sum_probs=37.4
Q ss_pred ChHHHHHHHhCCceEEEeccccCCCCCCeeEEEEeecCCCCeEEEEEEeeccCccchHHHHHHHHHHh
Q 002828 242 HPFAVGLLRAFPSVVMIDCTYKTSMYPFSFLEIVGATSTELTFSIAFAYLESERDDNYIWTLERLRSM 309 (876)
Q Consensus 242 ~~~~~~~~~~~~~vl~iD~T~~tn~~~~~l~~~~g~~~~~~~~~va~al~~~E~~~s~~w~l~~l~~~ 309 (876)
......+|..||+|..+.- ..-.+......+-||||+.-++.++-..+++.+...
T Consensus 12 ~~~l~~~F~~~G~v~~v~i-------------~~~~~~~~~~~~kG~afV~f~~~~~A~~A~~~~~~~ 66 (85)
T d2cpfa1 12 EETLKGVFSKVGAIKSCTI-------------SKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGH 66 (85)
T ss_dssp HHHHHHHHHTTSCEEEEEE-------------EEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTC
T ss_pred HHHHHHHHHHhCCccccce-------------ecccccccccccceEEEEEECCHHHHHHHHHHhCCC
Confidence 3567888999998876542 112233344567899999999998877777766543
No 9
>d1u04a2 c.55.3.10 (A:324-770) Argonaute homologue PF0537 {Pyrococcus furiosus [TaxId: 2261]}
Probab=17.27 E-value=1.3e+02 Score=30.37 Aligned_cols=70 Identities=13% Similarity=-0.024 Sum_probs=37.2
Q ss_pred eEEEeccccCCCCCCeeEEEEeecCCCCeEEEEEEe---eccCccch---HHHHHHHHHHhhcCCCCCeEEEeeccH
Q 002828 255 VVMIDCTYKTSMYPFSFLEIVGATSTELTFSIAFAY---LESERDDN---YIWTLERLRSMMEDDALPRVIVTDKDL 325 (876)
Q Consensus 255 vl~iD~T~~tn~~~~~l~~~~g~~~~~~~~~va~al---~~~E~~~s---~~w~l~~l~~~~~~~~~P~~ivtD~d~ 325 (876)
+|.+|.|+.+..-..-...++.+++.|.+.-..-.- -..|..+. +.-+|..+.+.. +...|..|+.=+|-
T Consensus 231 IIGiDVth~~~~~~~~~g~a~v~~~~g~~~~~s~v~~q~~~~E~idl~~~i~~aL~~~~~~n-~~~~P~rIIIyRDG 306 (447)
T d1u04a2 231 IIGIDVAPMKRSEGYIGGSAVMFDSQGYIRKIVPIKIGEQRGESVDMNEFFKEMVDKFKEFN-IKLDNKKILLLRDG 306 (447)
T ss_dssp EEEEEEEEECCTTTCEEEEEEEEETTSCEEEEEEEECCCCSSSSCCHHHHHHHHHHHHHHTT-CCCTTCEEEEECSB
T ss_pred EEEEeccccCCCCeEEEEEEEEEeCCCceEEEEEEEccCCCCceecHHHHHHHHHHHHHHHh-CCCCCceEEEEECC
Confidence 789999998655445555566667776654332111 12232221 223333333332 34567777776664
No 10
>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]}
Probab=15.14 E-value=1.2e+02 Score=22.35 Aligned_cols=64 Identities=6% Similarity=0.037 Sum_probs=0.0
Q ss_pred ecChHHHHHHHhCCceEEEeccccCCCCCCeeEEEEeecCCCCeEEEEEEeeccCccchHHHHHHHHHHhh-cCCCCCeE
Q 002828 240 WAHPFAVGLLRAFPSVVMIDCTYKTSMYPFSFLEIVGATSTELTFSIAFAYLESERDDNYIWTLERLRSMM-EDDALPRV 318 (876)
Q Consensus 240 ~~~~~~~~~~~~~~~vl~iD~T~~tn~~~~~l~~~~g~~~~~~~~~va~al~~~E~~~s~~w~l~~l~~~~-~~~~~P~~ 318 (876)
+.......+|..||+|..+. -+.......+-||||+.-++.+.-..+++.|-... .+...|..
T Consensus 18 ~te~~L~~~F~~~G~v~~v~----------------i~~d~~~g~~kg~afV~f~~~~~a~~Ai~~lng~~~~G~~~~i~ 81 (85)
T d1fxla2 18 MTQKELEQLFSQYGRIITSR----------------ILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPIT 81 (85)
T ss_dssp CCHHHHHHHHGGGSCEEEEE----------------EEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCE
T ss_pred CCHHHHHHHHHHhCCccccc----------------cccccccccCCCeeEEEEcCHHHHHHHHHHhCCCEeCCCCEEEE
Q ss_pred E
Q 002828 319 I 319 (876)
Q Consensus 319 i 319 (876)
+
T Consensus 82 V 82 (85)
T d1fxla2 82 V 82 (85)
T ss_dssp E
T ss_pred E
Done!