Query 044417
Match_columns 188
No_of_seqs 109 out of 1004
Neff 7.9
Searched_HMMs 29240
Date Mon Mar 25 04:48:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044417.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/044417hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1xrd_A LH-1, light-harvesting 40.1 29 0.00099 20.6 3.0 31 59-89 7-43 (52)
2 2bn5_A PSI; nuclear protein, s 15.8 44 0.0015 17.7 0.6 13 20-32 2-14 (33)
3 1rh5_B Preprotein translocase 11.7 1.7E+02 0.0059 18.4 2.6 24 61-84 33-56 (74)
4 1p58_D Envelope protein M; fla 10.9 1.2E+02 0.004 19.3 1.6 25 3-28 37-62 (75)
5 2hwn_E A kinase binding peptid 10.8 1.3E+02 0.0045 14.7 1.4 11 16-26 10-20 (26)
6 2vqc_A Hypothetical 13.2 kDa p 10.3 1.4E+02 0.0046 19.8 1.8 12 59-70 46-57 (118)
7 3mp7_B Preprotein translocase 8.9 3.2E+02 0.011 16.4 3.0 25 60-84 28-52 (61)
8 2ww9_B Protein transport prote 7.1 2.8E+02 0.0096 17.7 2.3 23 61-83 46-68 (80)
9 1z2z_A Probable tRNA pseudouri 6.7 1.4E+02 0.0047 25.3 0.8 28 159-186 258-286 (446)
10 1szw_A TRNA pseudouridine synt 6.4 2.3E+02 0.0078 23.6 2.0 28 159-186 205-233 (379)
No 1
>1xrd_A LH-1, light-harvesting protein B-880, alpha chain; membrane spanning helix, pigment binding, photosynthesis, membrane protein; NMR {Rhodospirillum rubrum} SCOP: f.3.1.1
Probab=40.10 E-value=29 Score=20.56 Aligned_cols=31 Identities=10% Similarity=-0.047 Sum_probs=21.5
Q ss_pred CchHHHHHHHHHHhccchhhhHHHH------HHHhhh
Q 044417 59 DHDWLRAVRMTSYGFLLYGPGSYVW------YQYLDH 89 (188)
Q Consensus 59 ~~D~~R~~~~~~~G~~~~gP~~~~w------y~~L~~ 89 (188)
-+|++|++.-.....+..+-..|+- |++||.
T Consensus 7 ~fDPrr~Lva~~~fl~vlAl~IHfilLSt~~fNWl~~ 43 (52)
T 1xrd_A 7 LFDPRQALVGLATFLFVLALLIHFILLSTERFNWLEG 43 (52)
T ss_dssp TSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred EEchhHHHHHHHHHHHHHHHHHHHHhhccCCcccccC
Confidence 4799998766555555567777775 677763
No 2
>2bn5_A PSI; nuclear protein, splicing, protein-protein interaction, structure, proline-rich peptide; NMR {Drosophila melanogaster} PDB: 2bn6_A
Probab=15.80 E-value=44 Score=17.75 Aligned_cols=13 Identities=31% Similarity=0.358 Sum_probs=10.3
Q ss_pred HHHHHhhhHhhhh
Q 044417 20 GDTIAQLIQRWRK 32 (188)
Q Consensus 20 gD~~aQ~~~~~~~ 32 (188)
.|..||+++.|+.
T Consensus 2 ~DYSaQW~eYYrs 14 (33)
T 2bn5_A 2 ADYSAQWAEYYRS 14 (33)
T ss_dssp CTTHHHHHHHHHH
T ss_pred CchHHHHHHHHHH
Confidence 3888999998754
No 3
>1rh5_B Preprotein translocase SECE subunit; protein translocation, SECY, membrane protein, protein channels, protein transport; 3.20A {Methanocaldococcus jannaschii} SCOP: f.23.28.1 PDB: 1rhz_B 2yxq_B 2yxr_B 3dkn_B
Probab=11.68 E-value=1.7e+02 Score=18.41 Aligned_cols=24 Identities=25% Similarity=0.481 Sum_probs=19.2
Q ss_pred hHHHHHHHHHHhccchhhhHHHHH
Q 044417 61 DWLRAVRMTSYGFLLYGPGSYVWY 84 (188)
Q Consensus 61 D~~R~~~~~~~G~~~~gP~~~~wy 84 (188)
++.+.++....|++++|-+.+.-+
T Consensus 33 EF~~iak~~~iG~~imG~IGfiIk 56 (74)
T 1rh5_B 33 EYLAVAKVTALGISLLGIIGYIIH 56 (74)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 577889999999988888776554
No 4
>1p58_D Envelope protein M; flavivirus, flaviviridae, glycoprotein E from borne encephalitis virus, membrane protein M, cryo-EM, ICOS virus; 9.50A {Dengue virus 2 puerto rico} SCOP: i.17.1.1
Probab=10.87 E-value=1.2e+02 Score=19.27 Aligned_cols=25 Identities=24% Similarity=0.115 Sum_probs=18.8
Q ss_pred ccch-HHHHHHHHHHHHHHHHHHhhhH
Q 044417 3 YRFP-LKQAATAGSLAFTGDTIAQLIQ 28 (188)
Q Consensus 3 ~~~P-lt~~~t~~~l~~~gD~~aQ~~~ 28 (188)
+|+| .+-++. .+.+.+|+...|++.
T Consensus 37 lrNp~~al~a~-~~~w~lG~~~~Qrvi 62 (75)
T 1p58_D 37 LRHPGFTIMAA-ILAYTIGTTHFQRVL 62 (75)
T ss_pred HHChHHHHHHH-HHHHHHcCChHHHHH
Confidence 5788 455555 888889998888875
No 5
>2hwn_E A kinase binding peptide; PKA, AKAP, dimerization/docking, D/D, regulatory subunit, TR; 1.60A {Rattus norvegicus}
Probab=10.82 E-value=1.3e+02 Score=14.69 Aligned_cols=11 Identities=18% Similarity=0.208 Sum_probs=8.2
Q ss_pred HHHHHHHHHhh
Q 044417 16 LAFTGDTIAQL 26 (188)
Q Consensus 16 l~~~gD~~aQ~ 26 (188)
-+.++|++.|.
T Consensus 10 kmiv~dvmqq~ 20 (26)
T 2hwn_E 10 KMIVSDVMQQC 20 (26)
T ss_pred HHHHHHHHHHH
Confidence 45678998885
No 6
>2vqc_A Hypothetical 13.2 kDa protein; winged-helix, crenarchaeal, DNA-binding protein, thermo protein, sulfolobus spindle virus; 2.3A {Sulfolobus virus-like particle SSV1} SCOP: a.4.5.78
Probab=10.28 E-value=1.4e+02 Score=19.82 Aligned_cols=12 Identities=17% Similarity=0.188 Sum_probs=9.3
Q ss_pred CchHHHHHHHHH
Q 044417 59 DHDWLRAVRMTS 70 (188)
Q Consensus 59 ~~D~~R~~~~~~ 70 (188)
.|+..|++++.+
T Consensus 46 ayniqr~l~~ic 57 (118)
T 2vqc_A 46 AYNIQRALKAIC 57 (118)
T ss_dssp HHHHHHHHHHHH
T ss_pred HhHHHHHHHHHH
Confidence 578888888765
No 7
>3mp7_B Preprotein translocase subunit SECE; protein transport, membrane protein complex, preprotein TRAN membrane insertion,; 2.90A {Pyrococcus furiosus}
Probab=8.91 E-value=3.2e+02 Score=16.41 Aligned_cols=25 Identities=24% Similarity=0.380 Sum_probs=20.1
Q ss_pred chHHHHHHHHHHhccchhhhHHHHH
Q 044417 60 HDWLRAVRMTSYGFLLYGPGSYVWY 84 (188)
Q Consensus 60 ~D~~R~~~~~~~G~~~~gP~~~~wy 84 (188)
=++.+.++....|++++|-+.+.-+
T Consensus 28 ~Ef~~iak~~~iG~~i~G~iGf~Ik 52 (61)
T 3mp7_B 28 ATYKRAAKITGLGIILIGLIGMLIR 52 (61)
T ss_dssp THHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3678999999999999888876544
No 8
>2ww9_B Protein transport protein SSS1; ribonucleoprotein, transmembrane, phospho signal sequence, membrane, ribosome, transport; 8.60A {Saccharomyces cerevisiae} PDB: 2wwa_B
Probab=7.11 E-value=2.8e+02 Score=17.72 Aligned_cols=23 Identities=22% Similarity=0.473 Sum_probs=18.5
Q ss_pred hHHHHHHHHHHhccchhhhHHHH
Q 044417 61 DWLRAVRMTSYGFLLYGPGSYVW 83 (188)
Q Consensus 61 D~~R~~~~~~~G~~~~gP~~~~w 83 (188)
++.+.++....|++++|-+.+.-
T Consensus 46 Ef~~iak~t~iG~~imG~IGfiI 68 (80)
T 2ww9_B 46 EYTKIVKAVGIGFIAVGIIGYAI 68 (80)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 57788999999999888887653
No 9
>1z2z_A Probable tRNA pseudouridine synthase D; alpha-beta protein., structural genomics, PSI, protein structure initiative; 2.60A {Methanosarcina mazei}
Probab=6.72 E-value=1.4e+02 Score=25.33 Aligned_cols=28 Identities=25% Similarity=0.399 Sum_probs=23.1
Q ss_pred eeeecCCchhhhhhh-hHHHHHHHHhhcc
Q 044417 159 FWVIPLQARVAFMSM-GSIFWNFYLSSTM 186 (188)
Q Consensus 159 F~~vP~~~Rvl~~n~-v~~~Wn~yLS~~~ 186 (188)
+.-+|...|.+|++. -|.+||-.+|...
T Consensus 258 ~~~ipr~lr~myv~AyQS~lfN~~lS~Ri 286 (446)
T 1z2z_A 258 FRVLPQNLYRMFVHGYQSYIYNIILCRRI 286 (446)
T ss_dssp GTTSCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHhCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 457899999888876 7999999999653
No 10
>1szw_A TRNA pseudouridine synthase D; novel fold, RNA modification, TRUD, structural proteomics in europe, spine, structural genomics; 2.00A {Escherichia coli} SCOP: d.265.1.4 PDB: 1si7_A 1sb7_A
Probab=6.43 E-value=2.3e+02 Score=23.57 Aligned_cols=28 Identities=18% Similarity=0.153 Sum_probs=19.9
Q ss_pred eeeecCCchhhhhhh-hHHHHHHHHhhcc
Q 044417 159 FWVIPLQARVAFMSM-GSIFWNFYLSSTM 186 (188)
Q Consensus 159 F~~vP~~~Rvl~~n~-v~~~Wn~yLS~~~ 186 (188)
+..+|...|.++++. -+.+||-.||...
T Consensus 205 ~~~ipr~lr~~yv~AyQS~lfN~~lS~Ri 233 (379)
T 1szw_A 205 TPVRDRNKRSFWLSAARSALFNQIVAERL 233 (379)
T ss_dssp -----CHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred hhcCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567899999888887 6899999999764
Done!