Query 029963
Match_columns 184
No_of_seqs 135 out of 1087
Neff 7.7
Searched_HMMs 29240
Date Mon Mar 25 09:55:34 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029963.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/029963hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2vqc_A Hypothetical 13.2 kDa p 31.8 13 0.00045 25.0 0.6 26 33-58 31-57 (118)
2 1p58_D Envelope protein M; fla 19.3 1.7E+02 0.0058 18.6 4.1 37 6-43 26-62 (75)
3 4aw6_A CAAX prenyl protease 1 14.8 4.1E+02 0.014 22.8 6.8 49 57-107 131-187 (482)
4 2ksd_A Aerobic respiration con 14.5 6.4 0.00022 27.6 -3.9 69 6-75 5-76 (115)
5 1szw_A TRNA pseudouridine synt 12.1 89 0.003 26.2 1.7 29 149-177 205-234 (379)
6 1xrd_A LH-1, light-harvesting 10.2 1.7E+02 0.0059 17.3 2.1 25 47-71 7-31 (52)
7 2qho_B E3 ubiquitin-protein li 10.2 1.6E+02 0.0054 17.3 1.8 20 113-132 19-38 (53)
8 1rh5_B Preprotein translocase 9.4 2E+02 0.007 18.2 2.4 25 48-72 32-56 (74)
9 3mp7_B Preprotein translocase 8.7 2.3E+02 0.008 17.1 2.4 25 48-72 28-52 (61)
10 1z2z_A Probable tRNA pseudouri 8.7 1.3E+02 0.0044 25.6 1.5 29 149-177 258-287 (446)
No 1
>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=31.76 E-value=13 Score=24.95 Aligned_cols=26 Identities=19% Similarity=0.084 Sum_probs=19.4
Q ss_pred HHHHHHHHhhh-cCCcchHHHHHHHHH
Q 029963 33 GCSDAIAQKIS-GVKKLQLKRLLLLML 58 (184)
Q Consensus 33 ~~gD~~aQ~~~-~~~~~D~~R~~r~~~ 58 (184)
.+-|++||.-. ....++..|++++..
T Consensus 31 sledilaqfeis~~sayniqr~l~~ic 57 (118)
T 2vqc_A 31 TLEDILAQFEISVPSAYNIQRALKAIC 57 (118)
T ss_dssp CHHHHHHHHCCCHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHheeccchHhHHHHHHHHHH
Confidence 46799999843 335689999999854
No 2
>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=19.25 E-value=1.7e+02 Score=18.61 Aligned_cols=37 Identities=11% Similarity=-0.087 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHhhCcHHHHHHHHHHHHHHHHHHHHhhh
Q 029963 6 KEAWRKYLIQLQVHPLRTKAITAGVLAGCSDAIAQKIS 43 (184)
Q Consensus 6 ~~~~~~Y~~~l~~~Pl~t~~~t~~~l~~~gD~~aQ~~~ 43 (184)
++=..+-.++.-|||..+-++. .+.+.+|+...|++.
T Consensus 26 ~~~l~kvE~WilrNp~~al~a~-~~~w~lG~~~~Qrvi 62 (75)
T 1p58_D 26 WKHAQRIETWILRHPGFTIMAA-ILAYTIGTTHFQRVL 62 (75)
T ss_pred HHHHHHHHHHHHHChHHHHHHH-HHHHHHcCChHHHHH
Confidence 3444566788889998888887 888899999988863
No 3
>4aw6_A CAAX prenyl protease 1 homolog; hydrolase, M48 peptidase, integral membrane protein, prelami processing, ageing, progeria; HET: PC1; 3.40A {Homo sapiens} PDB: 2ypt_A
Probab=14.76 E-value=4.1e+02 Score=22.79 Aligned_cols=49 Identities=24% Similarity=0.327 Sum_probs=30.6
Q ss_pred HHHhhhccchhHhHHH-H-HHhhhcCC--CC----hHHHHHHHHHHhhhhhhHHHHHHH
Q 029963 57 MLFDFGYGVPFGHFLN-K-FLDAIFKG--RD----NKSVAKKVLLEQLIFSPWINFLFM 107 (184)
Q Consensus 57 ~~~G~~~~gp~~~~wy-~-~L~~~~p~--~~----~~~~~~Kv~~Dq~v~~P~~~~~f~ 107 (184)
.+++.+..=|+ -+| . .+|+.++- .+ +.+.+|..++.+.+..|+....+.
T Consensus 131 ~l~~~l~~LP~--~~Y~tfvle~~~Gfnk~t~~~f~~D~~k~~~l~~vi~~pl~~~~~~ 187 (482)
T 4aw6_A 131 TLFSALAGLPW--SLYNTFVIEEKHGFNQQTLGFFMKDAIKKFVVTQCILLPVSSLLLY 187 (482)
T ss_dssp HHHHHHHHHHH--HHHHHHTHHHHTTCBCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhHH--HHHHheeehhhcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444454 344 3 37877665 33 456788899999999998655554
No 4
>2ksd_A Aerobic respiration control sensor protein ARCB; methods development, histidine kinase receptor, membrane domain, two-helical hairpin; NMR {Escherichia coli}
Probab=14.46 E-value=6.4 Score=27.61 Aligned_cols=69 Identities=7% Similarity=0.063 Sum_probs=41.6
Q ss_pred HHHHHHHHHHHhhCcHHHHHHHHHHHHHHHHHHHHhhhc---CCcchHHHHHHHHHHhhhccchhHhHHHHHH
Q 029963 6 KEAWRKYLIQLQVHPLRTKAITAGVLAGCSDAIAQKISG---VKKLQLKRLLLLMLFDFGYGVPFGHFLNKFL 75 (184)
Q Consensus 6 ~~~~~~Y~~~l~~~Pl~t~~~t~~~l~~~gD~~aQ~~~~---~~~~D~~R~~r~~~~G~~~~gp~~~~wy~~L 75 (184)
+..-+.|.++..|--.+.-++.+.++..+-+++.|.+.. .++.++.-..|...+|. +.+|+.-+.+..+
T Consensus 5 k~~aq~yvd~v~rlG~~rfSlL~~~~l~v~A~~~q~~~~~~~~G~v~~~Di~rsI~Fgl-i~aP~viYFls~v 76 (115)
T 2ksd_A 5 RLLAQYYVDLMMKLGLVRFSMLLALALVVLAIVVQMAVTMVLHGQVESIDVIRSIFFGL-LITPWAVYFLSVV 76 (115)
T ss_dssp ----------CCCSSTTSSCCSHHHHHHHHHHHHHHHHHHHSCCCSSSSSCCSTTTHHH-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhHhhhhcccchHHHHHHHHHHHH-HHHHHHHHHHHHH
Confidence 344566777777777777777788888888888888753 34555555555566676 4789888877654
No 5
>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=12.12 E-value=89 Score=26.19 Aligned_cols=29 Identities=7% Similarity=0.157 Sum_probs=20.4
Q ss_pred HheecCCchhhhhhHH-HHHHHHHHHHhhc
Q 029963 149 FQYAPQQFRELFFSLV-ASCWAIFINLKAE 177 (184)
Q Consensus 149 F~~vP~~~Rvl~~~~v-~~~W~~~LS~~~~ 177 (184)
+.-+|...|..+++.. |..||-.+|..-.
T Consensus 205 ~~~ipr~lr~~yv~AyQS~lfN~~lS~Ri~ 234 (379)
T 1szw_A 205 TPVRDRNKRSFWLSAARSALFNQIVAERLK 234 (379)
T ss_dssp -----CHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred hhcCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5679999999998876 8999999997543
No 6
>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=10.23 E-value=1.7e+02 Score=17.28 Aligned_cols=25 Identities=12% Similarity=0.005 Sum_probs=15.8
Q ss_pred cchHHHHHHHHHHhhhccchhHhHH
Q 029963 47 KLQLKRLLLLMLFDFGYGVPFGHFL 71 (184)
Q Consensus 47 ~~D~~R~~r~~~~G~~~~gp~~~~w 71 (184)
-+|++|++.......+..+-..|+-
T Consensus 7 ~fDPrr~Lva~~~fl~vlAl~IHfi 31 (52)
T 1xrd_A 7 LFDPRQALVGLATFLFVLALLIHFI 31 (52)
T ss_dssp TSSHHHHHHHHHHHHHHHHHHHHHH
T ss_pred EEchhHHHHHHHHHHHHHHHHHHHH
Confidence 4788888765555454566666653
No 7
>2qho_B E3 ubiquitin-protein ligase EDD1; protein-protein complex, protein binding/ligase complex; 1.85A {Homo sapiens}
Probab=10.20 E-value=1.6e+02 Score=17.29 Aligned_cols=20 Identities=15% Similarity=0.441 Sum_probs=16.3
Q ss_pred HhcCCChhhHHHHHhhhChH
Q 029963 113 VVEGKPWGSVMKKVRKDYPA 132 (184)
Q Consensus 113 ~l~g~~~~~~~~~~~~~~~~ 132 (184)
+++|++...|.+++++.=.+
T Consensus 19 VLqgksR~vIirELqrTnLd 38 (53)
T 2qho_B 19 VLQGKSRSVIIRELQRTNLD 38 (53)
T ss_dssp HSTTCCHHHHHHHHHHTTTC
T ss_pred HhcCCcHHHHHHHHHHhCcc
Confidence 78999988899999875443
No 8
>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=9.41 E-value=2e+02 Score=18.16 Aligned_cols=25 Identities=4% Similarity=-0.036 Sum_probs=20.2
Q ss_pred chHHHHHHHHHHhhhccchhHhHHH
Q 029963 48 LQLKRLLLLMLFDFGYGVPFGHFLN 72 (184)
Q Consensus 48 ~D~~R~~r~~~~G~~~~gp~~~~wy 72 (184)
=++.+.++.+..|+++.|-+.+.-+
T Consensus 32 ~EF~~iak~~~iG~~imG~IGfiIk 56 (74)
T 1rh5_B 32 DEYLAVAKVTALGISLLGIIGYIIH 56 (74)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3577999999999999998876554
No 9
>3mp7_B Preprotein translocase subunit SECE; protein transport, membrane protein complex, preprotein TRAN membrane insertion,; 2.90A {Pyrococcus furiosus}
Probab=8.72 E-value=2.3e+02 Score=17.12 Aligned_cols=25 Identities=12% Similarity=0.001 Sum_probs=20.4
Q ss_pred chHHHHHHHHHHhhhccchhHhHHH
Q 029963 48 LQLKRLLLLMLFDFGYGVPFGHFLN 72 (184)
Q Consensus 48 ~D~~R~~r~~~~G~~~~gp~~~~wy 72 (184)
=++.+.++.+..|+++.|-+.+.-+
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 4688999999999999998876544
No 10
>1z2z_A Probable tRNA pseudouridine synthase D; alpha-beta protein., structural genomics, PSI, protein structure initiative; 2.60A {Methanosarcina mazei}
Probab=8.68 E-value=1.3e+02 Score=25.57 Aligned_cols=29 Identities=21% Similarity=0.383 Sum_probs=24.1
Q ss_pred HheecCCchhhhhhHH-HHHHHHHHHHhhc
Q 029963 149 FQYAPQQFRELFFSLV-ASCWAIFINLKAE 177 (184)
Q Consensus 149 F~~vP~~~Rvl~~~~v-~~~W~~~LS~~~~ 177 (184)
+.-+|...|..|++.. |.+||-.+|-.-.
T Consensus 258 ~~~ipr~lr~myv~AyQS~lfN~~lS~Ri~ 287 (446)
T 1z2z_A 258 FRVLPQNLYRMFVHGYQSYIYNIILCRRIE 287 (446)
T ss_dssp GTTSCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHhCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4679999999888876 9999999997544
Done!