Query 011812
Match_columns 477
No_of_seqs 208 out of 684
Neff 5.5
Searched_HMMs 29240
Date Mon Mar 25 15:49:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011812.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/011812hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2efe_A Similarity to vacuolar 100.0 2.2E-63 7.6E-68 492.9 25.7 264 1-264 3-266 (267)
2 2ot3_A RAB5 GDP/GTP exchange f 100.0 6.6E-53 2.3E-57 419.6 25.1 248 3-259 12-265 (274)
3 1q2h_A APS, adaptor protein wi 22.1 1.2E+02 0.0043 23.7 4.7 56 6-62 3-58 (69)
4 1t6a_A Rbstp2229 gene product; 16.0 1.2E+02 0.0042 26.2 3.7 25 364-388 9-33 (126)
5 3tl4_X Glutaminyl-tRNA synthet 15.2 3.8E+02 0.013 24.6 7.1 54 182-240 45-98 (187)
6 3obq_A Tumor susceptibility ge 11.9 27 0.00094 31.1 -1.6 33 350-387 10-42 (146)
7 1dul_A Signal recognition part 10.9 1.1E+02 0.0039 23.7 1.9 22 364-385 42-63 (69)
8 1hq1_A Signal recognition part 8.9 1.6E+02 0.0053 24.8 2.1 22 364-385 76-97 (105)
9 3si5_X Protein CASC5; BUBR1-bl 8.8 1.3E+02 0.0046 18.7 1.2 13 7-19 10-22 (24)
10 2jqe_A SRP54, signal recogniti 8.8 1.6E+02 0.0054 25.3 2.1 22 364-385 85-106 (119)
No 1
>2efe_A Similarity to vacuolar protein sorting-associated VPS9; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_A 2efc_A* 2efh_A*
Probab=100.00 E-value=2.2e-63 Score=492.93 Aligned_cols=264 Identities=83% Similarity=1.277 Sum_probs=235.5
Q ss_pred CCCCcccchHHHHHHHhcCCCchHHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHH
Q 011812 1 MENADVFLGLHDFLERMRQPSAADFVKSIKSFIVSFSNNAPDPERDSAAVQSFLANMEAAFRAHPLWAGCSEEELDSAGE 80 (477)
Q Consensus 1 ~~~~~~~~~f~~FL~~Lr~p~a~~lvk~IksFI~~F~~~~~~~ee~s~~Vq~F~~~~~~~L~~~p~w~~~se~eld~i~e 80 (477)
|||+|++++|+.||++||+|+|.+|+++|++||.+|.+..+++++++++||+||+.+.++|+.|+.|+++++++++.+++
T Consensus 3 ~~~~~~~~~f~~Fl~~l~~~~a~~~~~~i~~Fi~~f~~~~~~~~e~~~~v~~f~~~~~~~l~~~~~~~~~~~~~~~~~~e 82 (267)
T 2efe_A 3 MENTDVFLGLHDFLERMRKPSAGDFVKSIKSFIVSFSNNAPDPEKDCAMVQEFFSKMEAAFRAHPLWSGCSEEELDSAGD 82 (267)
T ss_dssp ----------------CCSGGGHHHHHHHHHHHHTTTTSCCCHHHHHHHHHHHHHHHHHHHHSCGGGTTCCHHHHHHHHH
T ss_pred cccCcchhHHHHHHHHHcccchhHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHHHhcCcccccCCHHHHHHHHH
Confidence 89999999999999999999999999999999999999888899999999999999999999999999999999999999
Q ss_pred HHHHHHHHhHHHHhcCCCCcChhhHHHHHHHHHHHhcCCCCCCccccCCCCCchhHHHHHHHHHhcccCCChHHHHHHHH
Q 011812 81 GLEKYVMTKLFTRVFASIPDDVKTDEQLSEKIALVQQFVRPENLDIKASFQNETSWLLAQKELQKINMYKAPRDKLVCIL 160 (477)
Q Consensus 81 ~LEkyVm~kLYd~lF~~~~~d~e~D~~L~~KI~~L~~~Itp~~L~I~~~~~~e~~~~~Ai~eL~kIn~~kSP~DKL~cIl 160 (477)
+||+|||++||+++|++.+++.++|..|.+||+.|++||+|+||||++.+.++.+|..|+++|++|+.+++|+|||.||+
T Consensus 83 ~iEk~v~~~ly~~lf~~~~~d~~~D~~L~~ki~~l~~~i~~~~L~I~~~~~~~~~~~~A~~eL~ki~~~~sP~dKl~~l~ 162 (267)
T 2efe_A 83 GLEKYVMTKLFTRVFASNTEEVIADEKLFQKMSLVQQFISPENLDIQPTFQNESSWLLAQKELQKINMYKAPRDKLVCIL 162 (267)
T ss_dssp HHHHHHHHHHHHHHSSCSHHHHHHHHHHHHHHHHHTTTCCGGGGTCCGGGCCTTCSHHHHHHHHTGGGCCSHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHHHHccCCHHHcCCCCccCCcccHHHHHHHHHHhcccCCHHHHHHHHH
Confidence 99999999999999999888889999999999999669999999999999888899999999999999999999999999
Q ss_pred HHHHHHHHHHHHhhhhcCCCCCCchhhhHHHHHHHHHcCCcchhhHHHHHHHhhcccccCCchhhHHhhHHHHHHHHHhC
Q 011812 161 NCCKVINNLLLNASIALNENPPGADEFLPVLIYVTIKANPPQLHSNLLYIQRYRRQSRLVGEAAYFFTNMLSAESFISNI 240 (477)
Q Consensus 161 ~~~k~I~~~l~~~s~~s~~~~~gADDfLPiLIYVIIKAnpp~L~SnL~YI~~F~~~s~L~GE~gYyLTtLeaAv~FI~~l 240 (477)
+||+.|++.+.+.+..+++.++|||||||+||||||||+||+|+||++||++|++++.+.||.|||||||++|++||+++
T Consensus 163 ~~~k~I~~~l~~~~~~~~~~~~~ADd~LP~Liyvvika~~~~L~s~l~yI~~f~~~~~l~gE~gY~lt~l~aA~~fI~~l 242 (267)
T 2efe_A 163 NCCKVINNLLLNASIASNENAPGADEFLPVLIYVTIKANPPQLHSNLLYIQRYRRESKLVGEAAYFFTNILSAESFISNI 242 (267)
T ss_dssp HHHHHHHHHHHHHHHHTTCCCCCHHHHHHHHHHHHHHHCCTTHHHHHHHHHHHSCTTTSCHHHHHHHHHHHHHHHHHHTC
T ss_pred HHHHHHHHHHHhhccccccCCCChhHHHHHHHHHHHhcCcccHHHHHHHHHHHcCccccCCHHHHHHHHHHHHHHHHHhC
Confidence 99999999887544445678899999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHhc
Q 011812 241 DAQALSMEESEFERNMESAQALLS 264 (477)
Q Consensus 241 d~~sLsi~~eeF~~~m~~a~~~~~ 264 (477)
+.++|+|+++||+++|+.|++++.
T Consensus 243 ~~~~L~i~~~ef~~~~~~~~~~~~ 266 (267)
T 2efe_A 243 DAKSISLDEAEFEKNMESARARIS 266 (267)
T ss_dssp CTTTTTCCHHHHHHHHHHHHHC--
T ss_pred CHhhCCCCHHHHHHHHHHHHHHhc
Confidence 999999999999999999988654
No 2
>2ot3_A RAB5 GDP/GTP exchange factor; rabex-5, VPS9 domain, vesicular traffic, protein transport; 2.10A {Homo sapiens} SCOP: a.222.1.1 PDB: 1txu_A
Probab=100.00 E-value=6.6e-53 Score=419.57 Aligned_cols=248 Identities=31% Similarity=0.555 Sum_probs=224.6
Q ss_pred CCcccchHHHHHHHhcCCCchHHHHHHHHHHHHhhcC-CCCchhhHHHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHH
Q 011812 3 NADVFLGLHDFLERMRQPSAADFVKSIKSFIVSFSNN-APDPERDSAAVQSFLANMEAAFRAHPLWAGCSEEELDSAGEG 81 (477)
Q Consensus 3 ~~~~~~~f~~FL~~Lr~p~a~~lvk~IksFI~~F~~~-~~~~ee~s~~Vq~F~~~~~~~L~~~p~w~~~se~eld~i~e~ 81 (477)
-...+++|++||++|++| +.+++++|++||.+|.+. .+++++.+++|++||..+.++|..+ |++ ++++++.++++
T Consensus 12 ~~~~~~df~~FL~~~~~~-~~~l~k~i~sFi~~f~~~~~~~~~e~~~~v~~f~~~~~~~l~~~--~~~-s~~~~~~~~~~ 87 (274)
T 2ot3_A 12 TDRVSKEFIEFLKTFHKT-GQEIYKQTKLFLEGMHYKRDLSIEEQSECAQDFYHNVAERMQTR--GKV-PPERVEKIMDQ 87 (274)
T ss_dssp ----CHHHHHHHHTTHHH-HHHHHHHHHHHHHHHHTTTTSCHHHHHHHHHHHHHHHHHHHHST--TCC-CHHHHHHHHHH
T ss_pred CCCChHHHHHHHHHHhcc-cHhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHH--hcc-CHHHHHHHHHH
Confidence 345679999999999999 899999999999999975 4688999999999999999999987 886 67889999999
Q ss_pred HHHHHHHhHHHHhcCCCCc-ChhhHHHHHHHHHHHhcCCCCCCccccCCCCCc---hhHHHHHHHHHhcccCCChHHHHH
Q 011812 82 LEKYVMTKLFTRVFASIPD-DVKTDEQLSEKIALVQQFVRPENLDIKASFQNE---TSWLLAQKELQKINMYKAPRDKLV 157 (477)
Q Consensus 82 LEkyVm~kLYd~lF~~~~~-d~e~D~~L~~KI~~L~~~Itp~~L~I~~~~~~e---~~~~~Ai~eL~kIn~~kSP~DKL~ 157 (477)
||+|||.+||+.+|++... +..+|..|++||+.| +||+|+||||+..+... ..|..|+++|++|+.++||+|||.
T Consensus 88 iEk~v~~~ly~~lf~~~~~~~~~~D~~l~~ki~~L-~~i~~~~L~I~~~~~~p~~~~~~~~A~~eL~~i~~~~sP~dKL~ 166 (274)
T 2ot3_A 88 IEKYIMTRLYKYVFCPETTDDEKKDLAIQKRIRAL-RWVTPQMLCVPVNEDIPEVSDMVVKAITDIIEMDSKRVPRDKLA 166 (274)
T ss_dssp HHHHHHHHHHHHHSSCTTSSHHHHHHHHHHHHHHT-TTCCTTTTTCCCCTTSHHHHHHHHHHHHHHHHGGGCCSHHHHHH
T ss_pred HHHHHHHHHHHHHcCCchhhhHHHHHHHHHHHHHH-cCCCHHHcCCCcccCCchHHHHHHHHHHHHHHccccCCHHHHHH
Confidence 9999999999999998754 577899999999999 79999999999876432 368999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhhhhcCCCCCCchhhhHHHHHHHHHcCCcchhhHHHHHHHhhccccc-CCchhhHHhhHHHHHHH
Q 011812 158 CILNCCKVINNLLLNASIALNENPPGADEFLPVLIYVTIKANPPQLHSNLLYIQRYRRQSRL-VGEAAYFFTNMLSAESF 236 (477)
Q Consensus 158 cIl~~~k~I~~~l~~~s~~s~~~~~gADDfLPiLIYVIIKAnpp~L~SnL~YI~~F~~~s~L-~GE~gYyLTtLeaAv~F 236 (477)
||++||+.|++.++.. .+.++|||||||+||||||||+||+|+||++||++|++++.+ .||.|||||||++|++|
T Consensus 167 ~l~~~~k~I~~~l~~~----~~~~~~ADd~LP~Liyvvika~~~~l~s~l~yI~~F~~~~~l~~GE~gY~lttl~aAv~f 242 (274)
T 2ot3_A 167 CITKCSKHIFNAIKIT----KNEPASADDFLPTLIYIVLKGNPPRLQSNIQYITRFCNPSRLMTGEDGYYFTNLCCAVAF 242 (274)
T ss_dssp HHHHHHHHHHHHHHHH----HSSCBCHHHHHHHHHHHHHHHCCTTHHHHHHHHHHHSCTTTTTSSHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhc----CCCCCCHHHHHHHHHHHHHHcCcchHHHHHHHHHHHcCcccccCCHHHHHHHHHHHHHHH
Confidence 9999999999988642 356799999999999999999999999999999999999875 79999999999999999
Q ss_pred HHhCCCCCCCCCHHHHHHHHHHH
Q 011812 237 ISNIDAQALSMEESEFERNMESA 259 (477)
Q Consensus 237 I~~ld~~sLsi~~eeF~~~m~~a 259 (477)
|++++.++|+|+++||+++|+.+
T Consensus 243 I~~l~~~~L~i~~~ef~~~~~~~ 265 (274)
T 2ot3_A 243 IEKLDAQSLNLSQEDFDRYMSGQ 265 (274)
T ss_dssp HHHCCTGGGTCCHHHHHHHHTTS
T ss_pred HHhCCHHhcCCCHHHHHHHHhhc
Confidence 99999999999999999999744
No 3
>1q2h_A APS, adaptor protein with pleckstrin homology and SRC homology 2 domains; signal transduction, signaling protein; 1.70A {Homo sapiens} SCOP: a.34.4.1
Probab=22.08 E-value=1.2e+02 Score=23.69 Aligned_cols=56 Identities=21% Similarity=0.302 Sum_probs=37.4
Q ss_pred ccchHHHHHHHhcCCCchHHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHHHHHHHH
Q 011812 6 VFLGLHDFLERMRQPSAADFVKSIKSFIVSFSNNAPDPERDSAAVQSFLANMEAAFR 62 (477)
Q Consensus 6 ~~~~f~~FL~~Lr~p~a~~lvk~IksFI~~F~~~~~~~ee~s~~Vq~F~~~~~~~L~ 62 (477)
...++.+|-++.-.-++.|+.++...|+....... .+.......+.|.+.....+.
T Consensus 3 ~~~~W~EFCE~HAraAA~DfA~~~~~f~~~nP~~~-~~~s~~~Fs~~F~~~F~~hF~ 58 (69)
T 1q2h_A 3 HMPDWRQFCELHAQAAAVDFAHKFCRFLRDNPAYD-TPDAGASFSRHFAANFLDVFG 58 (69)
T ss_dssp --CCHHHHHHHHHHHHHHHHHHHHHHHHHHCGGGC-STTHHHHHHHHHHHHHHHHHH
T ss_pred CCCcHHHHHHHHHHHHHHHHHHHHHHHHhcCcccc-CcccHHHHHHHHHHHHHHHHH
Confidence 34578899999888889999999999999875442 222333345555555544443
No 4
>1t6a_A Rbstp2229 gene product; structural genomics, hypothetical protein, PSI, protein structure initiative; HET: MSE; 2.05A {Geobacillus stearothermophilus} SCOP: d.129.8.1
Probab=15.97 E-value=1.2e+02 Score=26.25 Aligned_cols=25 Identities=32% Similarity=0.421 Sum_probs=21.6
Q ss_pred cccCCcchhhHHHHHHHHHHHHHHH
Q 011812 364 AQVGDLTISDVEDLLNNYKQLVFKY 388 (477)
Q Consensus 364 a~~~dl~~~dv~~ll~~yk~lv~~y 388 (477)
....++++.||.+||..||+..-|.
T Consensus 9 s~~~s~sledvK~ll~~Y~~~t~kT 33 (126)
T 1t6a_A 9 PAGKTMTIEDVKQLLERYQMALKKT 33 (126)
T ss_dssp CTTCCCCHHHHHHHHHHHHHHHHHH
T ss_pred ccCCccCHHHHHHHHHHHHHHHHhh
Confidence 5667889999999999999987764
No 5
>3tl4_X Glutaminyl-tRNA synthetase; glutamine, appended domain, hinge, tRNA LIG amidotransferase, ligase; 2.30A {Saccharomyces cerevisiae}
Probab=15.15 E-value=3.8e+02 Score=24.61 Aligned_cols=54 Identities=7% Similarity=-0.161 Sum_probs=39.9
Q ss_pred CCchhhhHHHHHHHHHcCCcchhhHHHHHHHhhcccccCCchhhHHhhHHHHHHHHHhC
Q 011812 182 PGADEFLPVLIYVTIKANPPQLHSNLLYIQRYRRQSRLVGEAAYFFTNMLSAESFISNI 240 (477)
Q Consensus 182 ~gADDfLPiLIYVIIKAnpp~L~SnL~YI~~F~~~s~L~GE~gYyLTtLeaAv~FI~~l 240 (477)
.+.|.=.-.|+|.+.-.-+++-..+..||-+|....++.+.. ++.+|+.|+...
T Consensus 45 ~~~dk~~g~LLy~latk~k~~~~~~r~~l~~~I~~gklkt~~-----Qv~AAl~yl~~~ 98 (187)
T 3tl4_X 45 YQWNKSTRALVHNLASFVKGTDLPKSELIVNGIINGDLKTSL-----QVDAAFKYVKAN 98 (187)
T ss_dssp CCCCHHHHHHHHHHHHHHTTCCCTTHHHHHHHHHTTSCCSHH-----HHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHhccCccchhHHHHHHHHHhccCCcHH-----HHHHHHHHHHhC
Confidence 356888888888887644455566788888888777776542 588999999764
No 6
>3obq_A Tumor susceptibility gene 101 protein; protein transprot, ubiquitin binding, protein transport; 1.40A {Homo sapiens} SCOP: d.20.1.2 PDB: 3obs_A 3obu_A 3obx_A 3p9g_A* 3p9h_A* 2f0r_A 1kpp_A 1kpq_A 1m4p_A 1m4q_A 1s1q_A
Probab=11.92 E-value=27 Score=31.08 Aligned_cols=33 Identities=24% Similarity=0.477 Sum_probs=24.2
Q ss_pred hhhhcccccccccccccCCcchhhHHHHHHHHHHHHHH
Q 011812 350 EKASQVFQEYPYLFAQVGDLTISDVEDLLNNYKQLVFK 387 (477)
Q Consensus 350 ~~~~~~~~~y~~l~a~~~dl~~~dv~~ll~~yk~lv~~ 387 (477)
....++.++|+| .|+++.||.++|..|+.|.-+
T Consensus 10 ~~l~~~l~~Y~~-----~d~t~~dv~~vl~~yp~L~p~ 42 (146)
T 3obq_A 10 SQLKKMVSKYKY-----RDLTVRETVNVITLYKDLKPV 42 (146)
T ss_dssp HHHHHHTTTCSS-----HHHHHHHHHHHHHHCTTEEEE
T ss_pred HHHHHHHhcCCC-----cchhHHHHHHHHHhCCCCceE
Confidence 334445566865 578999999999999987443
No 7
>1dul_A Signal recognition particle protein (fifty-four homolog); protein-RNA complex, double helix, tetraloop, internal loop, SRP, ribonucleoprotein; HET: CCC; 1.80A {Escherichia coli} SCOP: a.36.1.1 PDB: 2xkv_C
Probab=10.91 E-value=1.1e+02 Score=23.73 Aligned_cols=22 Identities=23% Similarity=0.478 Sum_probs=17.6
Q ss_pred cccCCcchhhHHHHHHHHHHHH
Q 011812 364 AQVGDLTISDVEDLLNNYKQLV 385 (477)
Q Consensus 364 a~~~dl~~~dv~~ll~~yk~lv 385 (477)
|+--..+|.||.+||..|++.-
T Consensus 42 A~GSG~~v~eVn~Llkqf~~m~ 63 (69)
T 1dul_A 42 AAGSGMQVQDVNRLLKQFDDMQ 63 (69)
T ss_dssp HHHTTCCHHHHHHHHHHHHHHH
T ss_pred HccCCCCHHHHHHHHHHHHHHH
Confidence 4445678999999999999863
No 8
>1hq1_A Signal recognition particle protein; protein-RNA complex, double helix, tetraloop, internal loop, SRP, ribonucleoprotein; HET: CCC; 1.52A {Escherichia coli} SCOP: a.36.1.1 PDB: 3lqx_A* 2pxb_A 2pxd_A 2pxe_A 2pxf_A 2pxk_A 2pxl_A 2pxp_A 2pxq_A 2pxt_A 2pxu_A 2pxv_A
Probab=8.93 E-value=1.6e+02 Score=24.77 Aligned_cols=22 Identities=23% Similarity=0.478 Sum_probs=17.5
Q ss_pred cccCCcchhhHHHHHHHHHHHH
Q 011812 364 AQVGDLTISDVEDLLNNYKQLV 385 (477)
Q Consensus 364 a~~~dl~~~dv~~ll~~yk~lv 385 (477)
|+--..+|.||.+||..|++.-
T Consensus 76 A~GSG~~v~eVn~LLkqf~~m~ 97 (105)
T 1hq1_A 76 AAGSGMQVQDVNRLLKQFDDMQ 97 (105)
T ss_dssp HHHHTCCHHHHHHHHHHHHHHH
T ss_pred HccCCCCHHHHHHHHHHHHHHH
Confidence 4444678999999999999864
No 9
>3si5_X Protein CASC5; BUBR1-blinkin complex, mitotic checkpoint, BUBR1, blinkin/KN chromosome segregation, cell cycle; 2.20A {Homo sapiens}
Probab=8.78 E-value=1.3e+02 Score=18.72 Aligned_cols=13 Identities=23% Similarity=0.736 Sum_probs=9.8
Q ss_pred cchHHHHHHHhcC
Q 011812 7 FLGLHDFLERMRQ 19 (477)
Q Consensus 7 ~~~f~~FL~~Lr~ 19 (477)
...|++|+.||+-
T Consensus 10 KinfndFIKRLK~ 22 (24)
T 3si5_X 10 KIDFNDFIKRLKT 22 (26)
T ss_pred hccHHHHHHHHhc
Confidence 4578888888863
No 10
>2jqe_A SRP54, signal recognition 54 kDa protein; AF54, structure, solution, signaling protein; NMR {Archaeoglobus fulgidus}
Probab=8.75 E-value=1.6e+02 Score=25.29 Aligned_cols=22 Identities=32% Similarity=0.425 Sum_probs=17.6
Q ss_pred cccCCcchhhHHHHHHHHHHHH
Q 011812 364 AQVGDLTISDVEDLLNNYKQLV 385 (477)
Q Consensus 364 a~~~dl~~~dv~~ll~~yk~lv 385 (477)
|+--..+|.||.+||..|++.-
T Consensus 85 A~GSG~~v~eVn~LLkqf~~m~ 106 (119)
T 2jqe_A 85 AIGSGTSPQEVKELLNYYKTMK 106 (119)
T ss_dssp HHHHTSCHHHHHHHHHHHHHHH
T ss_pred HccCCCCHHHHHHHHHHHHHHH
Confidence 3444678999999999999864
Done!