Query 040827
Match_columns 499
No_of_seqs 205 out of 1208
Neff 4.7
Searched_HMMs 29240
Date Mon Mar 25 19:51:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040827.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/040827hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2ayj_A 50S ribosomal protein L 70.5 2 6.9E-05 33.3 2.0 31 10-40 14-44 (56)
2 3j21_g 50S ribosomal protein L 70.0 1.5 5.1E-05 33.4 1.1 33 8-40 7-39 (51)
3 1y02_A CARP2, FYVE-ring finger 44.7 6.9 0.00024 34.4 1.1 25 14-38 18-44 (120)
4 1x4u_A Zinc finger, FYVE domai 44.7 10 0.00036 30.6 2.1 25 15-39 14-40 (84)
5 1dvp_A HRS, hepatocyte growth 44.0 12 0.00041 35.2 2.8 26 14-39 160-187 (220)
6 1joc_A EEA1, early endosomal a 43.6 10 0.00035 33.1 2.1 24 15-38 69-94 (125)
7 1z2q_A LM5-1; membrane protein 42.5 12 0.00041 30.3 2.2 26 14-39 20-47 (84)
8 2yw8_A RUN and FYVE domain-con 41.1 12 0.00041 30.2 2.0 26 14-39 18-45 (82)
9 1wfk_A Zinc finger, FYVE domai 39.5 13 0.00043 30.7 1.9 26 14-39 8-35 (88)
10 1wv8_A TT1413, hypothetical pr 37.2 12 0.00042 30.3 1.4 15 399-413 7-21 (73)
11 1vfy_A Phosphatidylinositol-3- 35.5 14 0.00049 29.1 1.6 24 16-39 12-37 (73)
12 3zyq_A Hepatocyte growth facto 35.4 18 0.00061 34.4 2.5 25 15-39 164-190 (226)
13 3t7l_A Zinc finger FYVE domain 33.0 20 0.00068 29.5 2.1 26 14-39 19-46 (90)
14 2dkt_A Ring finger and CHY zin 31.8 16 0.00053 33.2 1.3 42 13-54 81-126 (143)
15 2vrw_B P95VAV, VAV1, proto-onc 26.6 22 0.00075 35.9 1.5 31 12-42 354-387 (406)
16 3u5e_m 60S ribosomal protein L 25.7 25 0.00087 30.1 1.6 26 13-38 91-118 (128)
17 2knc_B Integrin beta-3; transm 24.7 73 0.0025 25.9 4.0 40 103-142 13-52 (79)
18 2k4x_A 30S ribosomal protein S 24.1 36 0.0012 25.9 1.9 35 3-37 5-44 (55)
19 2dkt_A Ring finger and CHY zin 23.3 18 0.00062 32.8 0.1 38 10-47 96-136 (143)
No 1
>2ayj_A 50S ribosomal protein L40E; Zn-binding, beta-strand protein, structural genomics, PSI, protein structure initiative; NMR {Sulfolobus solfataricus} SCOP: g.41.8.7
Probab=70.48 E-value=2 Score=33.34 Aligned_cols=31 Identities=10% Similarity=0.120 Sum_probs=25.7
Q ss_pred ccccCcccccccccccCCCCccCCCCCceec
Q 040827 10 RMLYSAHYAMLRYMIVRKFSKHCRSCDKCVD 40 (499)
Q Consensus 10 ~~~~~~rfC~tC~~~KPpRShHCsvCnrCVl 40 (499)
....+...|..|...-|+++..|+.||..-+
T Consensus 14 k~~~~k~ICrkC~ARnp~~A~~CRKCg~~~L 44 (56)
T 2ayj_A 14 QRVFLKKVCRKCGALNPIRATKCRRCHSTNL 44 (56)
T ss_dssp TCSCCCEEETTTCCEECTTCSSCTTTCCCCE
T ss_pred HHHhchhhhccccCcCCcccccccCCCCCCC
Confidence 3456788999999999999999999886533
No 2
>3j21_g 50S ribosomal protein L40E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=69.96 E-value=1.5 Score=33.40 Aligned_cols=33 Identities=12% Similarity=0.064 Sum_probs=27.0
Q ss_pred ccccccCcccccccccccCCCCccCCCCCceec
Q 040827 8 ERRMLYSAHYAMLRYMIVRKFSKHCRSCDKCVD 40 (499)
Q Consensus 8 e~~~~~~~rfC~tC~~~KPpRShHCsvCnrCVl 40 (499)
-+....+.+.|..|....+.+...|+.||.--+
T Consensus 7 ie~r~~~k~iCpkC~a~~~~gaw~CrKCG~~~l 39 (51)
T 3j21_g 7 AEARIFKKYVCLRCGATNPWGAKKCRKCGYKRL 39 (51)
T ss_dssp HHHHSSSEEECTTTCCEECTTCSSCSSSSSCCC
T ss_pred HHHHHhCCccCCCCCCcCCCCceecCCCCCccc
Confidence 344456789999999999999999999987543
No 3
>1y02_A CARP2, FYVE-ring finger protein sakura; zinc-binding module, phosphoinositide binding, caspase regulation, metal binding protein; 1.80A {Homo sapiens} SCOP: a.140.2.1 g.50.1.1
Probab=44.72 E-value=6.9 Score=34.38 Aligned_cols=25 Identities=12% Similarity=0.038 Sum_probs=17.7
Q ss_pred Cccccccccc--ccCCCCccCCCCCce
Q 040827 14 SAHYAMLRYM--IVRKFSKHCRSCDKC 38 (499)
Q Consensus 14 ~~rfC~tC~~--~KPpRShHCsvCnrC 38 (499)
+...|..|.. ....|-|||+.||+.
T Consensus 18 ~~~~C~~C~~~Fs~~~RkHHCR~CG~i 44 (120)
T 1y02_A 18 LEPSCKSCGAHFANTARKQTCLDCKKN 44 (120)
T ss_dssp --CCCTTTCCCCSSGGGCEECTTTCCE
T ss_pred ccCcccCcCCccccccccccCCCCCCe
Confidence 4567999974 334688999999985
No 4
>1x4u_A Zinc finger, FYVE domain containing 27 isoform B; phosphoinositide binding, zinc binding, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=44.69 E-value=10 Score=30.65 Aligned_cols=25 Identities=16% Similarity=0.178 Sum_probs=18.2
Q ss_pred cccccccccc--cCCCCccCCCCCcee
Q 040827 15 AHYAMLRYMI--VRKFSKHCRSCDKCV 39 (499)
Q Consensus 15 ~rfC~tC~~~--KPpRShHCsvCnrCV 39 (499)
...|..|... .-.|-|||+.||+-+
T Consensus 14 ~~~C~~C~~~F~~~~RrHHCR~CG~vf 40 (84)
T 1x4u_A 14 FGNCTGCSATFSVLKKRRSCSNCGNSF 40 (84)
T ss_dssp CSSCSSSCCCCCSSSCCEECSSSCCEE
T ss_pred CCcCcCcCCccccchhhhhhcCCCcEE
Confidence 4568888743 456889999999843
No 5
>1dvp_A HRS, hepatocyte growth factor-regulated tyrosine kinase substrate; VHS, FYVE, zinc finger, superhelix, transferase; HET: CIT; 2.00A {Drosophila melanogaster} SCOP: a.118.9.2 g.50.1.1
Probab=43.95 E-value=12 Score=35.19 Aligned_cols=26 Identities=15% Similarity=0.346 Sum_probs=17.4
Q ss_pred Ccccccccccc--cCCCCccCCCCCcee
Q 040827 14 SAHYAMLRYMI--VRKFSKHCRSCDKCV 39 (499)
Q Consensus 14 ~~rfC~tC~~~--KPpRShHCsvCnrCV 39 (499)
+...|..|... .-.|-|||+.||+.+
T Consensus 160 ~~~~C~~C~~~F~~~~rrhhCr~CG~v~ 187 (220)
T 1dvp_A 160 DGRVCHRCRVEFTFTNRKHHCRNCGQVF 187 (220)
T ss_dssp CCSBCTTTCCBCCSSSCCEECTTTCCEE
T ss_pred CCCccCCCCCccCCcccccccCCcCCEE
Confidence 34678888632 335778888888753
No 6
>1joc_A EEA1, early endosomal autoantigen 1; FYVE domain, inositol 3-phosphate binding, membrane protein; HET: ITP; 2.20A {Homo sapiens} SCOP: g.50.1.1 h.1.21.1 PDB: 1hyi_A* 1hyj_A
Probab=43.61 E-value=10 Score=33.13 Aligned_cols=24 Identities=25% Similarity=0.332 Sum_probs=17.4
Q ss_pred cccccccccc--cCCCCccCCCCCce
Q 040827 15 AHYAMLRYMI--VRKFSKHCRSCDKC 38 (499)
Q Consensus 15 ~rfC~tC~~~--KPpRShHCsvCnrC 38 (499)
...|..|... ...|-|||+.||+-
T Consensus 69 ~~~C~~C~~~Fs~~~RrHHCR~CG~v 94 (125)
T 1joc_A 69 VQNCMACGKGFSVTVRRHHCRQCGNI 94 (125)
T ss_dssp CCBCTTTCCBCCSSSCCEECTTTCCE
T ss_pred CCCCcCcCCccccccccccCCCCCeE
Confidence 4568888743 34678999999874
No 7
>1z2q_A LM5-1; membrane protein, FYVE domain, zinc-finger; NMR {Leishmania major}
Probab=42.50 E-value=12 Score=30.34 Aligned_cols=26 Identities=19% Similarity=0.248 Sum_probs=18.4
Q ss_pred Ccccccccccc--cCCCCccCCCCCcee
Q 040827 14 SAHYAMLRYMI--VRKFSKHCRSCDKCV 39 (499)
Q Consensus 14 ~~rfC~tC~~~--KPpRShHCsvCnrCV 39 (499)
+...|..|... .-.|-|||+.||+-+
T Consensus 20 ~~~~C~~C~~~Fs~~~RrHHCR~CG~v~ 47 (84)
T 1z2q_A 20 DAPACNGCGCVFTTTVRRHHCRNCGYVL 47 (84)
T ss_dssp TCCBCTTTCCBCCTTSCCEECTTTCCEE
T ss_pred CCCCCcCcCCccccchhcccccCCCcEE
Confidence 45578888743 345789999998853
No 8
>2yw8_A RUN and FYVE domain-containing protein 1; structure genomics, structural genomics, NPPSFA; 3.00A {Homo sapiens} PDB: 2yqm_A
Probab=41.15 E-value=12 Score=30.20 Aligned_cols=26 Identities=19% Similarity=0.331 Sum_probs=18.4
Q ss_pred Ccccccccccc--cCCCCccCCCCCcee
Q 040827 14 SAHYAMLRYMI--VRKFSKHCRSCDKCV 39 (499)
Q Consensus 14 ~~rfC~tC~~~--KPpRShHCsvCnrCV 39 (499)
+...|..|... .-.|-|||+.||+-+
T Consensus 18 ~~~~C~~C~~~Fs~~~RrHHCR~CG~v~ 45 (82)
T 2yw8_A 18 EATHCRQCEKEFSISRRKHHCRNCGHIF 45 (82)
T ss_dssp CCCBCTTTCCBCBTTBCCEECTTTCCEE
T ss_pred cCCcccCcCCcccCccccccCCCCCCEE
Confidence 34568888742 345789999999853
No 9
>1wfk_A Zinc finger, FYVE domain containing 19; riken structural genomics/proteomics initiative, RSGI, structural genomics, unknown function; NMR {Mus musculus} SCOP: g.50.1.1
Probab=39.47 E-value=13 Score=30.69 Aligned_cols=26 Identities=12% Similarity=0.166 Sum_probs=18.7
Q ss_pred Ccccccccccc--cCCCCccCCCCCcee
Q 040827 14 SAHYAMLRYMI--VRKFSKHCRSCDKCV 39 (499)
Q Consensus 14 ~~rfC~tC~~~--KPpRShHCsvCnrCV 39 (499)
+...|..|... .-.|-|||+.||+-+
T Consensus 8 ~~~~C~~C~~~F~~~~RrHHCR~CG~vf 35 (88)
T 1wfk_A 8 MESRCYGCAVKFTLFKKEYGCKNCGRAF 35 (88)
T ss_dssp CCSBCTTTCCBCCSSSCEEECSSSCCEE
T ss_pred cCCCCcCcCCcccCccccccCCCCCCEE
Confidence 35568888743 346789999999843
No 10
>1wv8_A TT1413, hypothetical protein TTHA1013; structural genomics, unknown function, novel F riken structural genomics/proteomics initiative, RSGI; 2.20A {Thermus thermophilus} SCOP: d.304.1.1
Probab=37.16 E-value=12 Score=30.32 Aligned_cols=15 Identities=47% Similarity=0.904 Sum_probs=12.8
Q ss_pred ceeecCCCCceeecC
Q 040827 399 SVFWDPEAGRFVSSS 413 (499)
Q Consensus 399 sv~wd~eagr~vs~~ 413 (499)
-..||.|||-||...
T Consensus 7 ~~~~Deeagv~vA~s 21 (73)
T 1wv8_A 7 QALWDGEAGVWVAES 21 (73)
T ss_dssp EEEEETTTTEEEEEC
T ss_pred EEEEeCCCCEEEEEC
Confidence 468999999999874
No 11
>1vfy_A Phosphatidylinositol-3-phosphate binding FYVE domain of protein VPS27; endosome maturation, intracellular trafficking; 1.15A {Saccharomyces cerevisiae} SCOP: g.50.1.1
Probab=35.54 E-value=14 Score=29.08 Aligned_cols=24 Identities=25% Similarity=0.433 Sum_probs=17.2
Q ss_pred ccccccccc--cCCCCccCCCCCcee
Q 040827 16 HYAMLRYMI--VRKFSKHCRSCDKCV 39 (499)
Q Consensus 16 rfC~tC~~~--KPpRShHCsvCnrCV 39 (499)
..|..|... .-.|-|||+.||+-+
T Consensus 12 ~~C~~C~~~F~~~~RrHHCR~CG~v~ 37 (73)
T 1vfy_A 12 DACMICSKKFSLLNRKHHCRSCGGVF 37 (73)
T ss_dssp SBCTTTCCBCBTTBCCEECTTTCCEE
T ss_pred CcccCCCCccCCccccccCCCCCEEE
Confidence 468888743 345789999998843
No 12
>3zyq_A Hepatocyte growth factor-regulated tyrosine kinas substrate; signaling; 1.48A {Homo sapiens} PDB: 4avx_A*
Probab=35.42 E-value=18 Score=34.43 Aligned_cols=25 Identities=24% Similarity=0.333 Sum_probs=15.8
Q ss_pred ccccccccc--ccCCCCccCCCCCcee
Q 040827 15 AHYAMLRYM--IVRKFSKHCRSCDKCV 39 (499)
Q Consensus 15 ~rfC~tC~~--~KPpRShHCsvCnrCV 39 (499)
...|..|.. ..-.|-|||+.||+.+
T Consensus 164 ~~~C~~C~~~F~~~~RrhHCR~CG~v~ 190 (226)
T 3zyq_A 164 AEECHRCRVQFGVMTRKHHCRACGQIF 190 (226)
T ss_dssp CSBCTTTCCBCBTTBCCEECTTTCCEE
T ss_pred CCCCcCcCCCCCccccccccCCCcCEe
Confidence 346887763 2234678888888753
No 13
>3t7l_A Zinc finger FYVE domain-containing protein 16; structural genomics consortium, SGC, lipid BIND protein, transport protein; 1.09A {Homo sapiens}
Probab=33.03 E-value=20 Score=29.48 Aligned_cols=26 Identities=31% Similarity=0.482 Sum_probs=18.3
Q ss_pred Cccccccccc--ccCCCCccCCCCCcee
Q 040827 14 SAHYAMLRYM--IVRKFSKHCRSCDKCV 39 (499)
Q Consensus 14 ~~rfC~tC~~--~KPpRShHCsvCnrCV 39 (499)
+...|..|.. ..-.|-|||+.||.-+
T Consensus 19 ~~~~C~~C~~~F~~~~RrhhCr~CG~v~ 46 (90)
T 3t7l_A 19 EAPNCMNCQVKFTFTKRRHHCRACGKVF 46 (90)
T ss_dssp GCCBCTTTCCBCCSSSCCEECTTTCCEE
T ss_pred cCCcCcCCCCcccchhhCccccCCCCEE
Confidence 3556888874 3345789999998753
No 14
>2dkt_A Ring finger and CHY zinc finger domain- containing protein 1; RCHY1, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: g.89.1.1 g.93.1.1 PDB: 2k2c_A
Probab=31.84 E-value=16 Score=33.24 Aligned_cols=42 Identities=31% Similarity=0.606 Sum_probs=30.0
Q ss_pred cCcccccccccccC-CCCccCCCCCceecCC--C-ccccccccccc
Q 040827 13 YSAHYAMLRYMIVR-KFSKHCRSCDKCVDGF--D-HHCRWLNNCVG 54 (499)
Q Consensus 13 ~~~rfC~tC~~~KP-pRShHCsvCnrCVlrf--D-HHCpWLgNCIG 54 (499)
....||.+|+.|-+ +...||..||-|..+- | .||---|-|+.
T Consensus 81 f~~Y~C~~C~l~d~~k~~yHC~~CgiCR~G~~~~ffHC~~C~~C~s 126 (143)
T 2dkt_A 81 FGEYYCSICHLFDKDKRQYHCESCGICRIGPKEDFFHCLKCNLCLT 126 (143)
T ss_dssp SCSEECSSSCCEECSSSEEEETTTTEEEESCGGGEEEETTTTEEEE
T ss_pred ceeeEeceeecccCCCceecCCCCCceeccCCcCcEECCcCCeeec
Confidence 44668999988754 3567888888888762 1 57777777764
No 15
>2vrw_B P95VAV, VAV1, proto-oncogene VAV; lipoprotein, GTP-binding, metal-binding, phosphoprotein, exchange factor, RAC, GTPase, membrane domain; 1.85A {Mus musculus} PDB: 3bji_A 1f5x_A
Probab=26.61 E-value=22 Score=35.88 Aligned_cols=31 Identities=10% Similarity=0.051 Sum_probs=23.8
Q ss_pred ccCccccccccccc---CCCCccCCCCCceecCC
Q 040827 12 LYSAHYAMLRYMIV---RKFSKHCRSCDKCVDGF 42 (499)
Q Consensus 12 ~~~~rfC~tC~~~K---PpRShHCsvCnrCVlrf 42 (499)
.....+|..|...- -.+-+||+.|+..|.+.
T Consensus 354 ~~~~t~C~~C~~~~~g~~~qg~~C~~C~~~~h~~ 387 (406)
T 2vrw_B 354 FEETTSCKACQMLLRGTFYQGYRCYRCRAPAHKE 387 (406)
T ss_dssp CSSCCBCTTTCCBCCSSSSCEEEETTTCCEECGG
T ss_pred CCCCCCCccccchhceeCCCCCCCCCCcCccchh
Confidence 35568999998543 46889999999988764
No 16
>3u5e_m 60S ribosomal protein L40; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 3u5i_m 4b6a_m 4a18_K 4a19_K 4a1b_K 4a1d_K 4adx_5 3izc_p 3izs_p 3iz5_p 3izr_p
Probab=25.72 E-value=25 Score=30.12 Aligned_cols=26 Identities=15% Similarity=0.322 Sum_probs=22.1
Q ss_pred cCcccccccccccCCCCccCC--CCCce
Q 040827 13 YSAHYAMLRYMIVRKFSKHCR--SCDKC 38 (499)
Q Consensus 13 ~~~rfC~tC~~~KPpRShHCs--vCnrC 38 (499)
-+..+|..|...-|+++..|+ .|+..
T Consensus 91 ~~~~ic~~~~~~~~~~~~~~~~~~c~~~ 118 (128)
T 3u5e_m 91 CDKSVCRKCYARLPPRATNCRKRKCGHT 118 (128)
T ss_dssp TSCEEETTTCCEECTTCSSCSCTTTTSC
T ss_pred cceEeeccccccCCchhhccchhhCCCc
Confidence 357899999999999999999 48764
No 17
>2knc_B Integrin beta-3; transmembrane signaling, protein structure, cell A cleavage on PAIR of basic residues, disease mutation, disul bond, glycoprotein; NMR {Homo sapiens}
Probab=24.70 E-value=73 Score=25.86 Aligned_cols=40 Identities=8% Similarity=0.238 Sum_probs=20.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHcCcchHHHHHhhhc
Q 040827 103 AICTAVSFLATVPLGELFFFHMILIRKGITTYEYVVAMRT 142 (499)
Q Consensus 103 il~llLail~~I~lg~Lf~fHl~LI~rNiTT~E~i~~~R~ 142 (499)
++..+++.++++.+..|+++-++.....+--++.+.+.|.
T Consensus 13 Iv~gvi~gilliGllllliwk~~~~i~DrrE~~kFEkE~~ 52 (79)
T 2knc_B 13 VLLSVMGAILLIGLAALLIWKLLITIHDRKEFAKFEEERA 52 (79)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333444444444555566666666655555555554444
No 18
>2k4x_A 30S ribosomal protein S27AE; metal-binding, ribonucleoprotein, zinc, zinc-finger, structural genomics, PSI-2; NMR {Thermoplasma acidophilum} SCOP: g.41.8.8
Probab=24.12 E-value=36 Score=25.87 Aligned_cols=35 Identities=14% Similarity=0.047 Sum_probs=21.0
Q ss_pred ccccccccccc-CcccccccccccC----CCCccCCCCCc
Q 040827 3 IYYNQERRMLY-SAHYAMLRYMIVR----KFSKHCRSCDK 37 (499)
Q Consensus 3 ~~~e~e~~~~~-~~rfC~tC~~~KP----pRShHCsvCnr 37 (499)
.||+-+++.+. ..++|+.|..-.- .-.++|..|+.
T Consensus 5 ~~y~v~~gki~~~~~fCPkCG~~~~ma~~~dr~~C~kCgy 44 (55)
T 2k4x_A 5 ELYEIADGKLVRKHRFCPRCGPGVFLAEHADRYSCGRCGY 44 (55)
T ss_dssp CCCCCCCCCCCCSSCCCTTTTTTCCCEECSSEEECTTTCC
T ss_pred EEEEEcCCEEEEccccCcCCCCceeEeccCCEEECCCCCC
Confidence 46776666554 4789999986332 22335555543
No 19
>2dkt_A Ring finger and CHY zinc finger domain- containing protein 1; RCHY1, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: g.89.1.1 g.93.1.1 PDB: 2k2c_A
Probab=23.27 E-value=18 Score=32.80 Aligned_cols=38 Identities=18% Similarity=0.350 Sum_probs=27.2
Q ss_pred ccccCcccccccccccCCCCccCCCCCceec--CCC-cccc
Q 040827 10 RMLYSAHYAMLRYMIVRKFSKHCRSCDKCVD--GFD-HHCR 47 (499)
Q Consensus 10 ~~~~~~rfC~tC~~~KPpRShHCsvCnrCVl--rfD-HHCp 47 (499)
..++.=..|..|.+-...--.||..|+.|+. .+| |.|.
T Consensus 96 k~~yHC~~CgiCR~G~~~~ffHC~~C~~C~s~~l~~~H~C~ 136 (143)
T 2dkt_A 96 KRQYHCESCGICRIGPKEDFFHCLKCNLCLTTNLRGKHKCI 136 (143)
T ss_dssp SSEEEETTTTEEEESCGGGEEEETTTTEEEEGGGSSSSCCS
T ss_pred CceecCCCCCceeccCCcCcEECCcCCeeeccccCcCcccC
Confidence 3444455677777777788999999999964 344 7764
Done!