Query 024435
Match_columns 268
No_of_seqs 121 out of 140
Neff 3.1
Searched_HMMs 29240
Date Mon Mar 25 08:11:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024435.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/024435hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1zsq_A Myotubularin-related pr 88.2 0.85 2.9E-05 44.8 6.8 88 153-251 7-98 (528)
2 1lw3_A Myotubularin-related pr 86.5 1.1 3.9E-05 45.3 6.6 89 152-251 78-170 (657)
3 2hth_B Vacuolar protein sortin 81.9 1.4 4.9E-05 35.9 4.3 51 173-234 35-85 (140)
4 2yf0_A Myotubularin-related pr 68.8 18 0.00061 35.5 8.7 68 169-252 18-85 (512)
5 2cay_A VPS36 PH domain, vacuol 58.3 8.2 0.00028 31.8 3.6 48 173-230 48-95 (145)
6 1vcb_B Protein (elongin C); tu 39.4 10 0.00036 29.5 1.3 20 227-246 12-31 (112)
7 3s6n_M SurviVal motor neuron p 37.9 18 0.00061 24.4 2.0 17 252-268 18-34 (37)
8 1hv2_A Elongin C, ELC1; protei 37.7 15 0.00051 27.8 1.9 17 230-246 2-18 (99)
9 2d9z_A Protein kinase C, NU ty 34.9 26 0.00087 29.0 3.0 43 203-248 43-89 (129)
10 2fnj_C Transcription elongatio 34.5 14 0.00048 27.7 1.3 15 232-246 1-15 (96)
11 4ajy_C Transcription elongatio 29.6 19 0.00064 26.7 1.2 13 233-245 3-15 (97)
12 1zyi_A Methylosome subunit pic 28.4 48 0.0017 28.1 3.7 29 165-194 32-60 (171)
13 1pfj_A TFIIH basal transcripti 28.4 1.4E+02 0.0048 23.8 6.2 60 178-251 22-81 (108)
14 2coa_A Protein kinase C, D2 ty 27.5 37 0.0012 27.9 2.7 41 203-245 43-87 (125)
15 3ffy_A Putative tetrapyrrole ( 21.2 31 0.0011 26.5 1.1 11 242-252 18-28 (115)
No 1
>1zsq_A Myotubularin-related protein 2; protein-phospholipid complex, hydrolase; HET: PIB; 1.82A {Homo sapiens} SCOP: b.55.1.8 c.45.1.3 PDB: 1zvr_A*
Probab=88.21 E-value=0.85 Score=44.83 Aligned_cols=88 Identities=16% Similarity=0.178 Sum_probs=55.2
Q ss_pred cCCChhHHHhhhhc--ceeecCCCCeeeEEEeecceeeeecCCCcceecCCceeeeEEEEEEecCccccccCCCCCCCCc
Q 024435 153 FDTVPEEQLLKTYA--CYLSTSAGPVVGVLYLSTAKLAFCSDDPLSYKVGDETQWSYYKVVIPLSQLKAVNPSTSKAKPA 230 (268)
Q Consensus 153 F~v~~~EkLlKa~a--CYLSTsaGPVaG~LfIST~kvAFcSDrpl~~~s~g~~~~~yYKVvIPL~kik~Vnps~n~~nPs 230 (268)
|...|||.++.... =|+..-.|++.|+|||++.||.|.+... +. .+.+-|||..|..|..........
T Consensus 7 ~~lLpGE~i~~~~~~V~~~~~~~~~~~GtL~lTn~rLiF~~~~~------~~----~~~~~iPL~~I~~vek~~~~s~~~ 76 (528)
T 1zsq_A 7 PPLLPGENIKDMAKDVTYICPFTGAVRGTLTVTNYRLYFKSMER------DP----PFVLDASLGVINRVEKIGGASSRG 76 (528)
T ss_dssp CCCCTTCCEEEEEEEEEEEETTTEEEEEEEEEESSEEEEEESSS------SS----CEEEEEEGGGEEEEEEECCTTCCS
T ss_pred CccCCCCeEEEecCCEEEeCCCCCceeEEEEEECCEEEEEccCC------Cc----cEEEEeeccceEEEEEcCCCCcCC
Confidence 56789998885522 1455557899999999999999998521 01 235789998877776432111111
Q ss_pred --CceEEEEEecCceeeeeeecc
Q 024435 231 --EKYIQVISVDNHEFWFMGFVH 251 (268)
Q Consensus 231 --eKYIqIVTvD~~EFWFMGFvn 251 (268)
--.|+|..-|- .++=.+|-.
T Consensus 77 ~~~~~l~I~CKDf-r~~~f~f~~ 98 (528)
T 1zsq_A 77 ENSYGLETVCKDI-RNLRFAHKP 98 (528)
T ss_dssp TTCSEEEEEETTT-EEEEEECCG
T ss_pred CCCceEEEEccCC-eEEEEEecC
Confidence 12477766654 444445653
No 2
>1lw3_A Myotubularin-related protein 2; protein-phosphate complex, hydrolase; 2.30A {Homo sapiens} SCOP: b.55.1.8 c.45.1.3 PDB: 1m7r_A
Probab=86.49 E-value=1.1 Score=45.28 Aligned_cols=89 Identities=17% Similarity=0.192 Sum_probs=55.6
Q ss_pred ccCCChhHHHhhhhc--ceeecCCCCeeeEEEeecceeeeecCCCcceecCCceeeeEEEEEEecCccccccCCCCCCCC
Q 024435 152 SFDTVPEEQLLKTYA--CYLSTSAGPVVGVLYLSTAKLAFCSDDPLSYKVGDETQWSYYKVVIPLSQLKAVNPSTSKAKP 229 (268)
Q Consensus 152 ~F~v~~~EkLlKa~a--CYLSTsaGPVaG~LfIST~kvAFcSDrpl~~~s~g~~~~~yYKVvIPL~kik~Vnps~n~~nP 229 (268)
-|...|||.+..... =|+..-.|++.|+|||++.||.|++... +. .+.+-|||..|..|.........
T Consensus 78 ~~~LLPGE~v~~~~~~V~~~~p~~~~~~GtL~lTnyrLiF~~~~~------~~----~~~~~IPL~~I~~Iekv~g~s~~ 147 (657)
T 1lw3_A 78 EPPLLPGENIKDMAKDVTYICPFTGAVRGTLTVTNYRLYFKSMER------DP----PFVLDASLGVINRVEKIGGASSR 147 (657)
T ss_dssp CCCCCTTCCEEEEEEEEEEEETTTEEEEEEEEEESSEEEEEESSS------SS----CEEEEEEGGGEEEEEEECCTTCC
T ss_pred CCccCCCeeEEEEeCCEEEecCCCCceeEEEEEECCEEEEEecCC------Cc----ceEEEecccceEEEEecCCCccc
Confidence 377899999984421 1444446899999999999999998521 11 23567999888777653211111
Q ss_pred cC--ceEEEEEecCceeeeeeecc
Q 024435 230 AE--KYIQVISVDNHEFWFMGFVH 251 (268)
Q Consensus 230 se--KYIqIVTvD~~EFWFMGFvn 251 (268)
.+ -.|+|..-| |.++=.+|-.
T Consensus 148 g~~~~~l~I~CKD-fR~~~f~f~~ 170 (657)
T 1lw3_A 148 GENSYGLETVCKD-IRNLRFAHKP 170 (657)
T ss_dssp STTCSEEEEEETT-TEEEEEECCG
T ss_pred CCCCceEEEEecC-CcEEEEEeCC
Confidence 11 236666655 4444455653
No 3
>2hth_B Vacuolar protein sorting protein 36; GLUE domain, PH domain, viral budding, ubiquitin complex, protein transport; 2.70A {Homo sapiens} SCOP: b.55.1.12 PDB: 2dx5_A
Probab=81.92 E-value=1.4 Score=35.94 Aligned_cols=51 Identities=22% Similarity=0.209 Sum_probs=34.3
Q ss_pred CCCeeeEEEeecceeeeecCCCcceecCCceeeeEEEEEEecCccccccCCCCCCCCcCceE
Q 024435 173 AGPVVGVLYLSTAKLAFCSDDPLSYKVGDETQWSYYKVVIPLSQLKAVNPSTSKAKPAEKYI 234 (268)
Q Consensus 173 aGPVaG~LfIST~kvAFcSDrpl~~~s~g~~~~~yYKVvIPL~kik~Vnps~n~~nPseKYI 234 (268)
++---|.|||+|.||.|-.+.. . ..-+.|||..|+.+...+..-..+-|++
T Consensus 35 ~~~k~G~l~LTshRli~~d~~~-~----------~~s~~lpl~~v~~~e~~~~~f~~s~Ki~ 85 (140)
T 2hth_B 35 IKFDAGTLLLSTHRLIWRDQKN-H----------ECCMAILLSQIVFIEEQAAGIGKSAKIV 85 (140)
T ss_dssp SCCCCEEEEEESSEEEEEETTC-C----------SCCEEEEGGGEEEEEEECCTTSSCCEEE
T ss_pred CCCcCCEEEEecCEEEEecCCC-C----------ceEEEEEhHHeeeeeeeccccccCceEE
Confidence 4568899999999999965422 0 0236777777777776665555555554
No 4
>2yf0_A Myotubularin-related protein 6; hydrolase; 2.65A {Homo sapiens}
Probab=68.78 E-value=18 Score=35.50 Aligned_cols=68 Identities=18% Similarity=0.211 Sum_probs=39.9
Q ss_pred eecCCCCeeeEEEeecceeeeecCCCcceecCCceeeeEEEEEEecCccccccCCCCCCCCcCceEEEEEecCceeeeee
Q 024435 169 LSTSAGPVVGVLYLSTAKLAFCSDDPLSYKVGDETQWSYYKVVIPLSQLKAVNPSTSKAKPAEKYIQVISVDNHEFWFMG 248 (268)
Q Consensus 169 LSTsaGPVaG~LfIST~kvAFcSDrpl~~~s~g~~~~~yYKVvIPL~kik~Vnps~n~~nPseKYIqIVTvD~~EFWFMG 248 (268)
++.+.+++.|+|||++.|+-|.+|.. + .+.||+..|.+|.-.... .....|+|..-|-.-+=| .
T Consensus 18 ~~~~~~~~~GtL~lTn~~LiF~~~~~-------~------e~wi~~~~I~~VeK~~~~--~~~~~l~I~CKDfr~~~f-~ 81 (512)
T 2yf0_A 18 FSTSNKSLTGTLYLTATHLLFIDSHQ-------K------ETWILHHHIASVEKLALT--TSGCPLVIQCKNFRTVHF-I 81 (512)
T ss_dssp ------CCEEEEEECSSEEEEEESSS-------C------EEEEEGGGEEEEEECCCB--TTBEEEEEEETTSCEEEE-E
T ss_pred cCCCCCceeEEEEEECCEEEEeCCCC-------C------ceEecccceeEEEEecCC--CCCceEEEEecCCcEEEE-E
Confidence 34567999999999999999999542 1 255777777777542110 112457777776554444 4
Q ss_pred eccH
Q 024435 249 FVHY 252 (268)
Q Consensus 249 FvnY 252 (268)
|-.=
T Consensus 82 f~~~ 85 (512)
T 2yf0_A 82 VPRE 85 (512)
T ss_dssp ESCH
T ss_pred eCCh
Confidence 5443
No 5
>2cay_A VPS36 PH domain, vacuolar protein sorting protein 36; transport, ESCRT-II, lipid-binding, multivesicular bodies, membrane; 1.9A {Saccharomyces cerevisiae} SCOP: b.55.1.12
Probab=58.33 E-value=8.2 Score=31.77 Aligned_cols=48 Identities=17% Similarity=0.234 Sum_probs=32.2
Q ss_pred CCCeeeEEEeecceeeeecCCCcceecCCceeeeEEEEEEecCccccccCCCCCCCCc
Q 024435 173 AGPVVGVLYLSTAKLAFCSDDPLSYKVGDETQWSYYKVVIPLSQLKAVNPSTSKAKPA 230 (268)
Q Consensus 173 aGPVaG~LfIST~kvAFcSDrpl~~~s~g~~~~~yYKVvIPL~kik~Vnps~n~~nPs 230 (268)
.+--.|.|||+|.||-|-.+.+-.. .-+.|||..|+.+...+..-.++
T Consensus 48 ~~~k~G~lyLTshRIIyv~~~~~~~----------~SfslPL~~v~~~e~~~~~fg~s 95 (145)
T 2cay_A 48 LQRQRGRIFLTSQRIIYIDDAKPTQ----------NSLGLELDDLAYVNYSSGFLTRS 95 (145)
T ss_dssp TTCSSEEEEEESSEEEEEESSCHHH----------HCEEEEGGGEEEEEEECSSSSSS
T ss_pred cCCCccEEEEEcCeEEEecCCCCcc----------eEEEeEhHheeeeeEEcCccccC
Confidence 5678899999999999975533110 12677777777776655554443
No 6
>1vcb_B Protein (elongin C); tumor suppressor, cancer, ubiquitin, beta sandwich, transcription, transcriptional elongation; 2.70A {Homo sapiens} SCOP: d.42.1.1
Probab=39.36 E-value=10 Score=29.52 Aligned_cols=20 Identities=40% Similarity=0.737 Sum_probs=13.9
Q ss_pred CCCcCceEEEEEecCceeee
Q 024435 227 AKPAEKYIQVISVDNHEFWF 246 (268)
Q Consensus 227 ~nPseKYIqIVTvD~~EFWF 246 (268)
.-+..+||.++|-||++|-.
T Consensus 12 ~~~~~~~v~L~SsDG~~F~V 31 (112)
T 1vcb_B 12 EGPDAMYVKLISSDGHEFIV 31 (112)
T ss_dssp -----CEEEEECTTSCEEEE
T ss_pred cCCCCCEEEEEcCCCCEEEE
Confidence 34567899999999999964
No 7
>3s6n_M SurviVal motor neuron protein; SMN complex, SMN-gemin2 complex, U-rich snRNA, SM fold, SM C SNRNPS, snRNP biogenesis, PRE-mRNA splicing; 2.50A {Homo sapiens} PDB: 2leh_B
Probab=37.89 E-value=18 Score=24.41 Aligned_cols=17 Identities=35% Similarity=0.473 Sum_probs=15.1
Q ss_pred HHHHHHHHHHhhCCCCC
Q 024435 252 YDSAVKNLLGALGPRSL 268 (268)
Q Consensus 252 YdKA~k~Lq~Al~~~~~ 268 (268)
||||+..++.|+..+++
T Consensus 18 yDKAVaSfk~alk~~~~ 34 (37)
T 3s6n_M 18 YDKAVASFKHALKNGDI 34 (37)
T ss_pred HHHHHHHHHHHHhcCCc
Confidence 99999999999987763
No 8
>1hv2_A Elongin C, ELC1; protein-peptide complex, signaling protein; NMR {Saccharomyces cerevisiae} SCOP: d.42.1.1
Probab=37.69 E-value=15 Score=27.77 Aligned_cols=17 Identities=18% Similarity=0.585 Sum_probs=14.7
Q ss_pred cCceEEEEEecCceeee
Q 024435 230 AEKYIQVISVDNHEFWF 246 (268)
Q Consensus 230 seKYIqIVTvD~~EFWF 246 (268)
+.+||.++|-||++|-.
T Consensus 2 ~~~~v~L~SsDg~~f~V 18 (99)
T 1hv2_A 2 SQDFVTLVSKDDKEYEI 18 (99)
T ss_dssp CCSEEEEEETTTEEEEE
T ss_pred CCcEEEEEecCCCEEEE
Confidence 35899999999999964
No 9
>2d9z_A Protein kinase C, NU type; PH domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=34.89 E-value=26 Score=29.01 Aligned_cols=43 Identities=23% Similarity=0.526 Sum_probs=30.7
Q ss_pred eeeeEEEEEEecCccccccCCCCCCC--CcC--ceEEEEEecCceeeeee
Q 024435 203 TQWSYYKVVIPLSQLKAVNPSTSKAK--PAE--KYIQVISVDNHEFWFMG 248 (268)
Q Consensus 203 ~~~~yYKVvIPL~kik~Vnps~n~~n--Pse--KYIqIVTvD~~EFWFMG 248 (268)
+..-|||. |||..|-.|.+..+-.. +.. -+.||+| .+-.|. +|
T Consensus 43 ~~~k~yke-IpLseIL~v~~~~~~~~~~~~~~phcFEi~T-~~~~y~-Vg 89 (129)
T 2d9z_A 43 SGSKYYKE-IPLSEILRISSPRDFTNISQGSNPHCFEIIT-DTMVYF-VG 89 (129)
T ss_dssp SCCSCCCE-ECTTTCCEECCTTCCCCSSSCSCCCSEEEEC-SSCEEE-EC
T ss_pred CCCceece-eeHHHhcccccccCccccCCCCCCceEEEEE-CCEEEE-Ec
Confidence 44568888 99999999999755443 222 6799998 677664 44
No 10
>2fnj_C Transcription elongation factor B polypeptide 1; beta-sandwich, lectin-like, SPRY, protein transport/signaling protein complex; 1.80A {Mus musculus} SCOP: d.42.1.1 PDB: 1lqb_B 1lm8_C 2jz3_C 2xai_B 2c9w_C 2izv_C 3dcg_B 3zrc_B* 3zrf_B
Probab=34.50 E-value=14 Score=27.69 Aligned_cols=15 Identities=47% Similarity=0.844 Sum_probs=13.5
Q ss_pred ceEEEEEecCceeee
Q 024435 232 KYIQVISVDNHEFWF 246 (268)
Q Consensus 232 KYIqIVTvD~~EFWF 246 (268)
+||.++|-||++|--
T Consensus 1 ~~v~L~SsDg~~f~V 15 (96)
T 2fnj_C 1 MYVKLISSDGHEFIV 15 (96)
T ss_dssp CEEEEECTTSCEEEE
T ss_pred CeEEEEecCCCEEEe
Confidence 699999999999964
No 11
>4ajy_C Transcription elongation factor B polypeptide 1; E3 ubiquitin ligase, transcription factor, hypoxic signaling transcription; 1.73A {Homo sapiens} PDB: 2izv_C 3dcg_B 3zrc_B* 3zrf_B 3ztc_B* 3ztd_B* 3zun_B* 2c9w_C 4awj_B* 4b95_B* 4b9k_B* 2fnj_C 1lqb_B 1lm8_C 2jz3_C 2xai_B 4b9k_E*
Probab=29.61 E-value=19 Score=26.71 Aligned_cols=13 Identities=54% Similarity=1.007 Sum_probs=12.0
Q ss_pred eEEEEEecCceee
Q 024435 233 YIQVISVDNHEFW 245 (268)
Q Consensus 233 YIqIVTvD~~EFW 245 (268)
||.++|.||++|-
T Consensus 3 ~v~L~SsDg~~F~ 15 (97)
T 4ajy_C 3 YVKLISSDGHEFI 15 (97)
T ss_dssp EEEEECTTCCEEE
T ss_pred EEEEEecCCcEEE
Confidence 8999999999985
No 12
>1zyi_A Methylosome subunit picln; PH domain, cell volume regulation, RNA splicing, translation; NMR {Canis lupus familiaris}
Probab=28.43 E-value=48 Score=28.15 Aligned_cols=29 Identities=21% Similarity=0.405 Sum_probs=22.3
Q ss_pred hcceeecCCCCeeeEEEeecceeeeecCCC
Q 024435 165 YACYLSTSAGPVVGVLYLSTAKLAFCSDDP 194 (268)
Q Consensus 165 ~aCYLSTsaGPVaG~LfIST~kvAFcSDrp 194 (268)
.++||-.. +.-.|+|||++.||.|-|+..
T Consensus 32 v~~vl~~~-~~g~GtLyVt~~~l~W~~~~~ 60 (171)
T 1zyi_A 32 TEAVLNGK-GLGTGTLYIAESRLSWLDGSG 60 (171)
T ss_dssp EEEEBTTB-CCCEEEEEEETTEEEEEETTT
T ss_pred EEEEECCC-ccCceEEEEEcCEEEEEcCCC
Confidence 45788654 334699999999999998853
No 13
>1pfj_A TFIIH basal transcription factor complex P62 subunit; PH/PTB domain, structural proteomics in europe, spine, structural genomics; NMR {Homo sapiens} SCOP: b.55.1.9 PDB: 2rnr_B
Probab=28.41 E-value=1.4e+02 Score=23.82 Aligned_cols=60 Identities=18% Similarity=0.299 Sum_probs=42.0
Q ss_pred eEEEeecceeeeecCCCcceecCCceeeeEEEEEEecCccccccCCCCCCCCcCceEEEEEecCceeeeeeecc
Q 024435 178 GVLYLSTAKLAFCSDDPLSYKVGDETQWSYYKVVIPLSQLKAVNPSTSKAKPAEKYIQVISVDNHEFWFMGFVH 251 (268)
Q Consensus 178 G~LfIST~kvAFcSDrpl~~~s~g~~~~~yYKVvIPL~kik~Vnps~n~~nPseKYIqIVTvD~~EFWFMGFvn 251 (268)
|+||++..+|+.+.+..=. --|.++..+|+.-.. +...-+.==|||+-.|+-.|=|- |.|
T Consensus 22 GtL~l~~d~i~W~p~~~~~-----------~~vs~~~~~I~~qq~--SP~~k~KVqLqi~l~~~~~~~F~-Ftn 81 (108)
T 1pfj_A 22 GALYLMAERIAWAPEGKDR-----------FTISHMYADIKCQKI--SPEGKAKIQLQLVLHAGDTTNFH-FSN 81 (108)
T ss_dssp CEEEEETTEEEEECSSSSS-----------CSEEEETTTCCCEEE--CCSSSSSCEEEEECSSSCEEEEE-CCC
T ss_pred ceEEEEcceEEEccCCCCC-----------ceEEEehhhhhccee--CCCCCccEEEEEEEeCCCceEEE-EcC
Confidence 9999999999987643311 137788999997544 34555666789998877666553 665
No 14
>2coa_A Protein kinase C, D2 type; protein kinase D2, PH domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: b.55.1.1
Probab=27.51 E-value=37 Score=27.89 Aligned_cols=41 Identities=27% Similarity=0.549 Sum_probs=29.4
Q ss_pred eeeeEEEEEEecCccccccCCCCCCC--C--cCceEEEEEecCceee
Q 024435 203 TQWSYYKVVIPLSQLKAVNPSTSKAK--P--AEKYIQVISVDNHEFW 245 (268)
Q Consensus 203 ~~~~yYKVvIPL~kik~Vnps~n~~n--P--seKYIqIVTvD~~EFW 245 (268)
+..-|||. |||..|-.|.+..+... + ..-+.+|+| .+-.|.
T Consensus 43 ~~~~~yke-IpL~eIl~v~~~~~~~~l~~~~~~hcFEi~T-~~~~yy 87 (125)
T 2coa_A 43 TTNRYYKE-IPLSEILTVESAQNFSLVPPGTNPHCFEIVT-ANATYF 87 (125)
T ss_dssp SCSSCSEE-EETTTCCEEEESCCCSSSCTTSCCEEEEEEC-SSCCCC
T ss_pred CCCceeee-eehhHeecccccccccccCCCCCCceEEEEe-CCeEEE
Confidence 34558887 99999999999755442 2 126799999 566664
No 15
>3ffy_A Putative tetrapyrrole (corrin/porphyrin) methylas; structural genomics, APC62130.1, methyltransferase, PSI-2, P structure initiative; 2.00A {Bacteroides fragilis} PDB: 3fq6_A
Probab=21.22 E-value=31 Score=26.49 Aligned_cols=11 Identities=36% Similarity=0.763 Sum_probs=8.9
Q ss_pred ceeeeeeeccH
Q 024435 242 HEFWFMGFVHY 252 (268)
Q Consensus 242 ~EFWFMGFvnY 252 (268)
..|||.||+-=
T Consensus 18 ~~F~F~Gflp~ 28 (115)
T 3ffy_A 18 EKFCFEGFLPQ 28 (115)
T ss_dssp SSEEEEESCCS
T ss_pred CcEEEEeeCCC
Confidence 46999999864
Done!