Query 005571
Match_columns 690
No_of_seqs 165 out of 228
Neff 5.1
Searched_HMMs 29240
Date Tue Mar 26 18:13:06 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/005571.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_2079-2083//hhsearch_pdb/005571hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 4dgw_C PRE-mRNA-splicing facto 1.0 1 1 55.4 7.9 82 604-686 114-224 (231)
2 3pgw_S U1-70K; protein-RNA com 1.0 1 1 37.9 3.5 105 2-111 244-394 (437)
3 1xjs_A NIFU-like protein; SR17 1.0 1 1 17.5 2.3 55 361-415 73-129 (147)
4 1s2d_A Purine trans deoxyribos 1.0 1 1 16.9 1.5 19 592-610 148-166 (167)
5 1m1c_A GAG protein, major coat 1.0 1 1 16.5 3.4 20 273-292 193-212 (680)
6 1xcr_A Hypothetical protein PT 1.0 1 1 16.2 0.6 19 593-612 278-297 (316)
7 2pus_A IBDV VP1 RNA-dependant 1.0 1 1 15.7 -1.1 33 615-648 222-269 (852)
8 1wj2_A Probable WRKY transcrip 1.0 1 1 15.7 2.9 51 584-644 20-70 (78)
9 1su0_B NIFU like protein ISCU; 1.0 1 1 15.7 3.6 72 355-426 66-139 (159)
10 2ayd_A WRKY transcription fact 1.0 1 1 15.6 3.7 51 584-644 17-67 (76)
No 1
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces cerevisiae}
Probab=1.00 E-value=1 Score=55.43 Aligned_cols=82 Identities=20% Similarity=0.236 Sum_probs=61.5
Q ss_pred CCCEEEEEEECCCCC---------CCCCCCCEEEEECCC-----CCCEEEEEEECCCCCCCEEEEEECCCCCCCCCC---
Q ss_conf 222025776426667---------999997079984899-----997399998439998530135404432435787---
Q 005571 604 IVQGYKFNIFYPDLV---------DKTKAPTYTIEKDGS-----NGETCIIRFHAGPPYEDIAFKIVNKEWEYSHKK--- 666 (690)
Q Consensus 604 vVQGYKFNIFYPDLI---------DKtkaPty~ie~~~~-----~~dtciIRF~AGPPYEDIAFrIVnrEWeyS~Kr--- 666 (690)
--+|.=|.|.||.-| .....|.+.|...=. ..++--|.| |.-|||-|||+|-|+|-+.+.+.
T Consensus 114 gQ~GLLFQVdYPEeIk~~~~~~~~~egi~PrhRIMSAyEQrVE~PKd~QYLVI-AAEPYETIAFKIPNrEIDk~e~~~~~ 192 (231)
T 4dgw_C 114 GSVGMAIQVNYSSEVKENSVDSDDKAKVPPLIRIVSGLELSDTKQKGKKFLVI-AYEPFENIAIELPPNEILFSENNDMD 192 (231)
T ss_dssp CBCCEEEEEECCCSSSTTSCCSCSSTTCCCEEEEEETTCCSSCCCCCCEEEEE-ECSSSCCBCCEECSSCSSCCSCCSCC
T ss_pred CCEEEEEEEECCHHHHHCCCCCCCCCCCCCCEEEECHHHHCCCCCCCCEEEEE-EECCCCCCEEECCCHHHCCCCCCCCC
T ss_conf 87148999979700210545444578998687888779940668889879999-82797771068378544666544455
Q ss_pred ---------C-CCCCCC--CCEEEEEEEECCC
Q ss_conf ---------6-431113--6357999750014
Q 005571 667 ---------G-FKCTFE--RGILHVYFNFKRY 686 (690)
Q Consensus 667 ---------G-Fr~~F~--rGILqL~FnFKr~ 686 (690)
| |-|.+| ...|.|.|.||..
T Consensus 193 ~~~~svDElgKfwTyWD~DsK~FyLQffFK~~ 224 (231)
T 4dgw_C 193 NNNDGVDELNKKCTFWDAISKLYYVQFFFKQA 224 (231)
T ss_dssp CCCCSSCHHHHHTEEEETTTTEEEEC------
T ss_pred CCCCCCCCCCCEEEEECCCCCEEEEEEEEEEH
T ss_conf 55444124698998864988899999998150
No 2
>3pgw_S U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_K 2l5i_A 2l5j_A*
Probab=1.00 E-value=1 Score=37.90 Aligned_cols=105 Identities=16% Similarity=0.281 Sum_probs=0.0
Q ss_pred CCCCCCCCCCCCCCCCCCCHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHH--------------------
Q ss_conf 988767410011577723312220137875100123233588899945412566654210--------------------
Q 005571 2 GSHGKTSKSKRENSSSKRSRSERKRYDDSSSELESKSASYNSSDESPERSSRKRQERTKS-------------------- 61 (690)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~rd~~~~R~~~~~~~~~~~-------------------- 61 (690)
.+........+.-+.++..+..+...+.+....+.++.++++++++++|++ ....
T Consensus 244 r~rsr~r~R~R~rsrsr~r~r~~r~r~r~~~~r~r~r~r~r~r~r~r~r~r-----~r~r~~r~r~r~r~r~r~r~~~~~ 318 (437)
T 3pgw_S 244 RSRERDKERERRRSRSRDRRRRSRSRDKEERRRSRERSKDKDRDRKRRSSR-----SRERARRERERKEELRGGGGDMAE 318 (437)
T ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-----CCCCCCCCCHHHHHHHCCCCHHHH
T ss_conf 544544456666666767554333444443332234444333344444334-----333312331034443023210111
Q ss_pred --------------------------CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHCCCC
Q ss_conf --------------------------02557677888532245677888888889988889875036654211577
Q 005571 62 --------------------------KRNRHDRESDSSEDDGRRSKSNRRSRDSDSSDDDSNESDHDHRKRKSSRN 111 (690)
Q Consensus 62 --------------------------~r~~~~~~s~~~~~~~~r~~~~~~~r~~~~~~d~~~~s~~~~~~~~~~~~ 111 (690)
+++++..+.+.+.+++.+++++.+.|++++++|+.+..+...+.+.....
T Consensus 319 ~~~~~~~~~~~~~~~~~~~~~~~~~r~r~r~r~r~r~r~r~r~r~r~r~rdr~r~r~r~~~r~~~~~~r~~~~~~~ 394 (437)
T 3pgw_S 319 PSEAGDAPPDDGPPGELGPDGPDGPEEKGRDRDRERRRSHRSERERRRDRDRDRDRDREHKRGERGSERGRDEARG 394 (437)
T ss_pred HCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf 0000012233332123564210123332001220021223110003232312110112112444555555543334
No 3
>1xjs_A NIFU-like protein; SR17, structure, autostructure, iron-sulfur, zinc, northeast structural genomics consortium, NESG; NMR {Bacillus subtilis} SCOP: d.224.1.2 PDB: 2azh_A
Probab=1.00 E-value=1 Score=17.48 Aligned_cols=55 Identities=9% Similarity=0.032 Sum_probs=36.3
Q ss_pred HHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHH--HHHHHHHHHHHHHHH
Q ss_conf 9989865199999999999999999974189854889999--999999999998999
Q 005571 361 EADVRNLLDGKTHKELEALQTKIELQMRAGTAKVVEYWEA--ILKRLHIYKAKACLK 415 (690)
Q Consensus 361 ~~DI~~il~gKs~~eL~~LE~qI~~KL~Sge~iDveYWE~--lLk~L~v~kAka~L~ 415 (690)
.+=+..++.|||.+|...|-......|.+++..+.+.|+. +|.-+..|.+|-..-
T Consensus 73 aS~mte~v~Gkt~~Ea~~i~~~~~~ml~~~~~~~~~~l~~l~~l~~v~~~p~R~~Ca 129 (147)
T 1xjs_A 73 ASMMTQAIKGKDIETALSMSKIFSDMMQGKEYDDSIDLGDIEALQGVSKFPARIKCA 129 (147)
T ss_dssp HHHHHHHHTTSBHHHHHHHHHHHHHHHHHCSCCSSCCCHHHHHHHHHTTSTTTHHHH
T ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHCHHHHHCCCCCCCCHHHHH
T ss_conf 999999986996999999999999998178998455525356614756475126789
No 4
>1s2d_A Purine trans deoxyribosylase; ribosylate intermediate, PTD, ARAA, transferase; HET: AR4 ADE; 2.10A {Lactobacillus helveticus} SCOP: c.23.14.1 PDB: 1s2g_A* 1s2i_A* 1s2l_A 1s3f_A*
Probab=1.00 E-value=1 Score=16.93 Aligned_cols=19 Identities=26% Similarity=0.609 Sum_probs=16.9
Q ss_pred CCCCCCCCCCCCCCCEEEE
Q ss_conf 4558999999842220257
Q 005571 592 QTHYDHDNPPPKIVQGYKF 610 (690)
Q Consensus 592 QTHYD~DNPPPKvVQGYKF 610 (690)
-.-||++++|++-+.|||-
T Consensus 148 l~~ydf~~~~~~~~~g~~~ 166 (167)
T 1s2d_A 148 LADYNFNECPSNPVRGYGI 166 (167)
T ss_dssp GGTCCTTTCCCBCCCSCEE
T ss_pred HHHCCCCCCCCCCCCCCCC
T ss_conf 9647655787657677403
No 5
>1m1c_A GAG protein, major coat protein; dsRNA virus structure, RNA-protein interaction, mRNA decapping, L-A virus, QUAI-equivalence; 3.50A {Saccharomyces cerevisiae virus l-a} SCOP: e.42.1.1
Probab=1.00 E-value=1 Score=16.52 Aligned_cols=20 Identities=35% Similarity=0.501 Sum_probs=12.8
Q ss_pred CCCCCCCHHHHCCCCHHHHH
Q ss_conf 75446711220289967889
Q 005571 273 DIEINEPYMVFKGLTVKEME 292 (690)
Q Consensus 273 ~iel~eP~~il~gLs~~eLe 292 (690)
.+.-+.||.-+.||+.++..
T Consensus 193 ~P~~d~p~iDlrgLt~eEa~ 212 (680)
T 1m1c_A 193 FPSIDVPYLDVRPLTVTEVN 212 (680)
T ss_dssp SCSSSSCEEECTTSCHHHHH
T ss_pred CCCCCCCEEECCCCCHHHHH
T ss_conf 65568855763689889989
No 6
>1xcr_A Hypothetical protein PTD012; structural genomics, zinc-containing fold, splice variant, A buffer, metal binding protein; 1.70A {Homo sapiens} SCOP: d.290.1.2
Probab=1.00 E-value=1 Score=16.24 Aligned_cols=19 Identities=37% Similarity=0.639 Sum_probs=7.1
Q ss_pred CCCCCCCCCCCCC-CEEEEEE
Q ss_conf 5589999998422-2025776
Q 005571 593 THYDHDNPPPKIV-QGYKFNI 612 (690)
Q Consensus 593 THYD~DNPPPKvV-QGYKFNI 612 (690)
-||-+|..|.-|- -|| ||+
T Consensus 278 GHYHyDttpd~VEYegY-F~~ 297 (316)
T 1xcr_A 278 GHYHYDTTPDIVEYLGY-FLP 297 (316)
T ss_dssp EEEEEESCTTTCEEEEE-EEE
T ss_pred CCCEECCCCCEEEEEEE-ECH
T ss_conf 65233489970789997-011
No 7
>2pus_A IBDV VP1 RNA-dependant RNA polymerase; RNA polymerase motifs, transferase; 2.40A {Infectious bursal disease virus} PDB: 2qj1_A 2r70_A 2r72_A 2pgg_A
Probab=1.00 E-value=1 Score=15.75 Aligned_cols=33 Identities=27% Similarity=0.440 Sum_probs=0.0
Q ss_pred CCCCCC-----CCCCCEEEEECCCC----------CCEEEEEEECCCCC
Q ss_conf 666799-----99970799848999----------97399998439998
Q 005571 615 PDLVDK-----TKAPTYTIEKDGSN----------GETCIIRFHAGPPY 648 (690)
Q Consensus 615 PDLIDK-----tkaPty~ie~~~~~----------~dtciIRF~AGPPY 648 (690)
|+..|+ +-+|+|.|.+.++. + ..-..=.|||||
T Consensus 222 p~~~d~~~~~L~~~Ps~li~~t~~~~~~~~~~~~lP-~It~kSsAGlPy 269 (852)
T 2pus_A 222 PGEDDKPWVPLTRVPSRMLVLTGDVDGDFEVEDYLP-KINLKSSSGLPY 269 (852)
T ss_dssp SCC----CCCBCSCGGGGEEEESCSSSCCEEEECSC-CCCTTSBCCTTC
T ss_pred CCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCC
T ss_conf 777777776634475763167764224555411376-325344568986
No 8
>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=1.00 E-value=1 Score=15.73 Aligned_cols=51 Identities=22% Similarity=0.493 Sum_probs=0.0
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCCCEEEEECCCCCCEEEEEEEC
Q ss_conf 6434334445589999998422202577642666799999707998489999739999843
Q 005571 584 GYEWNKYNQTHYDHDNPPPKIVQGYKFNIFYPDLVDKTKAPTYTIEKDGSNGETCIIRFHA 644 (690)
Q Consensus 584 GyEWNKYNQTHYD~DNPPPKvVQGYKFNIFYPDLIDKtkaPty~ie~~~~~~dtciIRF~A 644 (690)
||-|-||-| |.|+|-+|--.|=-...+.-.-+=.|+++.+++...++.+..
T Consensus 20 Gy~WRKYGQ----------K~ikgs~~PRsYYrCt~~gC~a~K~Ver~~~d~~~~~~tY~G 70 (78)
T 1wj2_A 20 GYRWRKYGQ----------KVVKGNPYPRSYYKCTTPGCGVRKHVERAATDPKAVVTTYEG 70 (78)
T ss_dssp SSCBCCCEE----------ECCTTCSSCEEEEEEECSSCEEEEEEEEETTTTSEEEEEEES
T ss_pred CCHHHHCCC----------CCCCCCCCEEEEEECCCCCCCCEEEEEEECCCCCEEEEEEEE
T ss_conf 761321765----------411799670477254867998681079975999899999830
No 9
>1su0_B NIFU like protein ISCU; structural genomics, BSGC structure funded by NI protein structure initiative, PSI; 2.30A {Streptococcus pyogenes} SCOP: d.224.1.2
Probab=1.00 E-value=1 Score=15.66 Aligned_cols=72 Identities=10% Similarity=0.127 Sum_probs=0.0
Q ss_pred CCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 6742179989865199999999999999999974189854889999--99999999999899999999999999
Q 005571 355 GLHSSIEADVRNLLDGKTHKELEALQTKIELQMRAGTAKVVEYWEA--ILKRLHIYKAKACLKEIHAKMLRKHL 426 (690)
Q Consensus 355 gih~sV~~DI~~il~gKs~~eL~~LE~qI~~KL~Sge~iDveYWE~--lLk~L~v~kAka~L~~~h~~~l~~~l 426 (690)
+|..+-.+=+..++.|||.+|...|-......|.+++..+.+.|+. +|.-+..|.+|-..--+--..|+.-|
T Consensus 66 ais~ASaS~mte~v~Gkt~~Ea~~i~~~f~~ml~~~~~~~~~~L~~l~~l~gv~~~p~R~~Ca~La~~Al~~Al 139 (159)
T 1su0_B 66 TISTASSSMMTDAVIGKSKEEALALADIFSEMVQGQENPAQKELGEAELLAGVAKFPQRIKCSTLAWNALKEAI 139 (159)
T ss_dssp HHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHTTTCCCGGGGGGGGGGGGGGGGGCHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHCHHHHHCCCCCCCCHHHHHHHHHHHHHHHH
T ss_conf 99999999999998599699999999999999826899845552635551475658513688999999999999
No 10
>2ayd_A WRKY transcription factor 1; beta strands, zinc finger; 1.60A {Arabidopsis thaliana}
Probab=1.00 E-value=1 Score=15.57 Aligned_cols=51 Identities=24% Similarity=0.430 Sum_probs=0.0
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCCCEEEEECCCCCCEEEEEEEC
Q ss_conf 6434334445589999998422202577642666799999707998489999739999843
Q 005571 584 GYEWNKYNQTHYDHDNPPPKIVQGYKFNIFYPDLVDKTKAPTYTIEKDGSNGETCIIRFHA 644 (690)
Q Consensus 584 GyEWNKYNQTHYD~DNPPPKvVQGYKFNIFYPDLIDKtkaPty~ie~~~~~~dtciIRF~A 644 (690)
||-|-||-| |.|.|-+|--.|=-.....-.-+=.|+++.+++...++.+..
T Consensus 17 Gy~WRKYGQ----------K~ikgs~~PRsYYrCt~~gC~a~K~Ver~~~d~~~~~~tY~G 67 (76)
T 2ayd_A 17 GYRWRKYGQ----------KSVKGSPYPRSYYRCSSPGCPVKKHVERSSHDTKLLITTYEG 67 (76)
T ss_dssp SSCEEEEEE----------ECCTTCSSCEEEEEECSTTCCCEEEEEECSSSTTEEEEEEES
T ss_pred CCHHHHCCC----------CCCCCCCCCEEEEECCCCCCCCEEEEEEECCCCCEEEEEECC
T ss_conf 761312766----------311799884128071789998462179987999899999813
Done!