Query 028726
Match_columns 205
No_of_seqs 76 out of 78
Neff 2.4
Searched_HMMs 29240
Date Tue Mar 26 18:16:33 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/028726.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_2220-2223//hhsearch_pdb/028726hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2h88_D Succinate dehydrogenase 1.0 1 1 18.3 1.6 61 134-202 31-93 (103)
2 2o35_A Hypothetical protein DU 1.0 1 1 16.8 -0.4 32 147-178 71-105 (105)
3 1l8n_A Alpha-D-glucuronidase; 1.0 1 1 15.7 2.1 33 105-137 559-592 (679)
4 1gqi_A Alpha-glucuronidase; (a 1.0 1 1 15.5 2.4 33 105-137 559-592 (708)
5 3vr8_D Succinate dehydrogenase 1.0 1 1 14.9 1.9 67 135-203 81-147 (156)
6 3fyb_A Protein of unknown func 1.0 1 1 14.8 -0.0 29 147-175 70-101 (104)
7 2wsc_F Photosystem I reaction 1.0 1 1 13.4 -0.5 31 124-160 143-181 (231)
8 3c01_A Surface presentation of 1.0 1 1 13.2 1.7 19 161-179 15-33 (48)
9 3arc_J Photosystem II reaction 1.0 1 1 13.1 2.2 32 124-156 6-37 (40)
10 3b0z_A Flagellar biosynthetic 1.0 1 1 13.1 0.0 18 161-178 19-36 (52)
No 1
>2h88_D Succinate dehydrogenase cytochrome B, small subun; complex II, membrane protein, heme protein, iron sulfur PROT cytochrome B, oxidoreductase; HET: FAD BHG HEM UNL; 1.74A {Gallus gallus} PDB: 1yq4_D* 1yq3_D* 2fbw_D* 2h89_D* 2wqy_D* 1zoy_D* 1zp0_D* 3abv_D* 3ae1_D* 3ae2_D* 3ae3_D* 3ae4_D* 3ae5_D* 3ae6_D* 3ae7_D* 3ae8_D* 3ae9_D* 3aea_D* 3aeb_D* 3aec_D* ...
Probab=1.00 E-value=1 Score=18.26 Aligned_cols=61 Identities=15% Similarity=0.024 Sum_probs=42.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHCEEEEEEC--CHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf 0047899999999887755503155608--98887886651400577999999974433366776179987
Q 028726 134 GHPGNMAVVLFAMGGYGTYLGFCIRYSD--DMEEKAKAKDLHPKLLGGMFFFFALGATGGITSLLTSDKPI 202 (205)
Q Consensus 134 GHPlmMawVLLAmG~YA~YLGwQiRrta--d~Evk~K~r~rH~QLgs~LLaFMVLG~iGGMlSLvmQ~kPI 202 (205)
.+|++| ..+.+...|-+++|+|.=..+ -++.. +++.-+++.++...+..|+.-+-+++--|
T Consensus 31 ~~pv~d-~~l~~~l~~H~~~G~q~vI~DYv~~~~~-------~~~~~~~~~~~s~~t~~Gl~~~~~~d~Gi 93 (103)
T 2h88_D 31 PGPAVD-YSLAAALTLHGHWGLGQVITDYVHGDTP-------IKVANTGLYVLSAITFTGLCYFNYYDVGI 93 (103)
T ss_dssp CSHHHH-HHHHHHHHHHHHHHHHHHHHHHCCSHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHSSCH
T ss_pred CCHHHH-HHHHHHHHHHHHHHCCEEEECCCCCCHH-------HHHHHHHHHHHHHHHHHHHHEEEECCCCH
T ss_conf 768999-9999999999997027324211366339-------99999999999999999884333368729
No 2
>2o35_A Hypothetical protein DUF1244; helix bundle, structural genomics, PSI-2, protein structure initiative; HET: MSE; 2.12A {Sinorhizobium meliloti} SCOP: a.293.1.1
Probab=1.00 E-value=1 Score=16.75 Aligned_cols=32 Identities=25% Similarity=0.208 Sum_probs=25.4
Q ss_pred HHHHH-HHCEEEEEE--CCHHHHHHHHHHCHHHHH
Q ss_conf 88775-550315560--898887886651400577
Q 028726 147 GGYGT-YLGFCIRYS--DDMEEKAKAKDLHPKLLG 178 (205)
Q Consensus 147 G~YA~-YLGwQiRrt--ad~Evk~K~r~rH~QLgs 178 (205)
-+|++ |--|+.+.- +++|+.+.|..++.+-||
T Consensus 71 ~vYGMpy~eWKa~~Q~eAt~eQ~aaf~~~~~~~~~ 105 (105)
T 2o35_A 71 IVYGMPYEEWRTQNQGEASPEQKAAFERNRPKEGS 105 (105)
T ss_dssp HHHSSCHHHHTC-----------------------
T ss_pred HHHCCCHHHHHHHHCCCCCHHHHHHHHHHCCCCCC
T ss_conf 99599899999977789999999999874101489
No 3
>1l8n_A Alpha-D-glucuronidase; hydrolase; HET: GCW XYP; 1.50A {Geobacillus stearothermophilus} SCOP: c.1.8.10 d.92.2.2 PDB: 1k9d_A* 1mqq_A* 1mqp_A 1mqr_A* 1k9f_A* 1k9e_A*
Probab=1.00 E-value=1 Score=15.73 Aligned_cols=33 Identities=24% Similarity=0.308 Sum_probs=20.6
Q ss_pred CCCHHHHHHHHHHHHHHHCCCC-CCHHHHHHHHH
Q ss_conf 9812257765359998501798-81122100047
Q 028726 105 PGAGTVRALFGPFVELVKSWNL-PDWLVHWGHPG 137 (205)
Q Consensus 105 ~g~~~l~~~lePia~~frsl~L-PE~IkhfGHPl 137 (205)
-|+....+|.+|+++.|.+++- ||-+.=|+|-+
T Consensus 559 tGt~~~~QY~~~~a~~y~~~~tcPdelLL~FHhv 592 (679)
T 1l8n_A 559 TGTGYTAQYFPENAAMYESLDTCPDELLLFFHHV 592 (679)
T ss_dssp TSCCGGGGSCHHHHHHHHSTTTSCGGGHHHHCCE
T ss_pred CCCCCHHCCCHHHHHHHCCCCCCCHHHHHHHCCC
T ss_conf 8888012169799987378212967783011248
No 4
>1gqi_A Alpha-glucuronidase; (alpha-beta)8 barrel, glycoside hydrolase; 1.48A {Pseudomonas cellulosa} SCOP: c.1.8.10 d.92.2.2 PDB: 1gqj_A* 1gqk_A* 1gql_A* 1h41_A*
Probab=1.00 E-value=1 Score=15.53 Aligned_cols=33 Identities=21% Similarity=0.320 Sum_probs=19.8
Q ss_pred CCCHHHHHHHHHHHHHHHCCCC-CCHHHHHHHHH
Q ss_conf 9812257765359998501798-81122100047
Q 028726 105 PGAGTVRALFGPFVELVKSWNL-PDWLVHWGHPG 137 (205)
Q Consensus 105 ~g~~~l~~~lePia~~frsl~L-PE~IkhfGHPl 137 (205)
-|+....+|.+|+++.|.+++- ||-+.=|+|-+
T Consensus 559 tGt~~~~QY~~~~a~~y~~~~tcPdelLLwFHhv 592 (708)
T 1gqi_A 559 TGSNALAQYPEPIAKAWGDLNSVPEDLILWFHHL 592 (708)
T ss_dssp TTTCGGGGSCHHHHHHHHSTTTSCGGGGGGTCCE
T ss_pred CCCCCHHCCCHHHHHHHCCCCCCCHHHHHHHCCC
T ss_conf 7887112169799987368212967783010248
No 5
>3vr8_D Succinate dehydrogenase [ubiquinone] cytochrome B subunit, mitochondrial; membrane protein, reductase, mitochondria MEMB oxidoreductase; HET: FAD HEM RQX EPH; 2.81A {Ascaris suum} PDB: 3vrb_D*
Probab=1.00 E-value=1 Score=14.91 Aligned_cols=67 Identities=10% Similarity=-0.062 Sum_probs=47.9
Q ss_pred HHHHHHHHHHHHHHHHHHHCEEEEEECCHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf 047899999999887755503155608988878866514005779999999744333667761799876
Q 028726 135 HPGNMAVVLFAMGGYGTYLGFCIRYSDDMEEKAKAKDLHPKLLGGMFFFFALGATGGITSLLTSDKPIF 203 (205)
Q Consensus 135 HPlmMawVLLAmG~YA~YLGwQiRrtad~Evk~K~r~rH~QLgs~LLaFMVLG~iGGMlSLvmQ~kPIf 203 (205)
+|+++ .++.+...+-++.|+|.=.++ =--+.++...-+|++-+++..+..-+..|+.-+-+.+--|.
T Consensus 81 ~pvlD-~lLa~al~~H~h~GfqsvI~D-YVp~rv~g~~~~K~A~~lL~~~s~~tl~GLy~f~t~dvGit 147 (156)
T 3vr8_D 81 GREMD-LCLALALTLHVHWGVWGVVND-YGRPFVLGDTLAAAVRVGAYIFTACLLAGLLYFNEHDVGLT 147 (156)
T ss_dssp SHHHH-HHHHHHHHHHHHHHHHHHHHH-HSCHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSCHH
T ss_pred CHHHH-HHHHHHHHHHHHHHHHHHHHE-ECCHHHCCCHHHHHHHHHHHHHHHHHHHHHEEEEECCCCHH
T ss_conf 78999-999999999999856235320-05433028058999999999999999988517663585099
No 6
>3fyb_A Protein of unknown function (DUF1244); hydrocar degrading, structural genomics, PSI-2; HET: PEG; 1.80A {Alcanivorax borkumensis SK2}
Probab=1.00 E-value=1 Score=14.81 Aligned_cols=29 Identities=14% Similarity=0.151 Sum_probs=22.4
Q ss_pred HHHHH-HHCEEEEEE--CCHHHHHHHHHHCHH
Q ss_conf 88775-550315560--898887886651400
Q 028726 147 GGYGT-YLGFCIRYS--DDMEEKAKAKDLHPK 175 (205)
Q Consensus 147 G~YA~-YLGwQiRrt--ad~Evk~K~r~rH~Q 175 (205)
-+|++ |--|+.+.- +++|+.+.|..++++
T Consensus 70 ~vYGMpy~eWKa~~Q~eAt~eQ~aafe~~~~~ 101 (104)
T 3fyb_A 70 YVYGMPFAEWKTLYQKPASEAQLAAFEAKQAA 101 (104)
T ss_dssp HHHSSCHHHHHHHHCCCCCHHHHHHHHHC---
T ss_pred HHHCCCHHHHHHHHCCCCCHHHHHHHHHHHHH
T ss_conf 99589899999977789999999999975110
No 7
>2wsc_F Photosystem I reaction center subunit III, chloroplastic; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Spinacia oleracea} PDB: 2wse_F* 2wsf_F*
Probab=1.00 E-value=1 Score=13.44 Aligned_cols=31 Identities=26% Similarity=0.362 Sum_probs=17.8
Q ss_pred CCCCCHHH--HHHH------HHHHHHHHHHHHHHHHHHCEEEEEE
Q ss_conf 79881122--1000------4789999999988775550315560
Q 028726 124 WNLPDWLV--HWGH------PGNMAVVLFAMGGYGTYLGFCIRYS 160 (205)
Q Consensus 124 l~LPE~Ik--hfGH------PlmMawVLLAmG~YA~YLGwQiRrt 160 (205)
-++|--|+ .|.| |.+| . --.++|.||-+|.-
T Consensus 143 DGLPHLIvdG~~~HaGeF~IPgll-F-----LYIAGwIGW~GR~Y 181 (231)
T 2wsc_F 143 DGLPHLIVSGDQRHWGEFITPGIL-F-----LYIAGWIGWVGRSY 181 (231)
T ss_dssp SCCCCBCCSSSSSCCTTTSHHHHH-H-----HHHTTTTTTTTTTT
T ss_pred CCCCEEECCCCCCCEEEEEECHHH-H-----HHHHCCCCCCCHHH
T ss_conf 998527547885500445632345-8-----77721236302999
No 8
>3c01_A Surface presentation of antigens protein SPAS; auto cleavage protein, flagella, ESCU, YSCU, intein, T3SS, M inner membrane, transmembrane; 2.60A {Salmonella typhimurium} SCOP: d.367.1.1
Probab=1.00 E-value=1 Score=13.21 Aligned_cols=19 Identities=26% Similarity=0.473 Sum_probs=16.0
Q ss_pred CCHHHHHHHHHHCHHHHHH
Q ss_conf 8988878866514005779
Q 028726 161 DDMEEKAKAKDLHPKLLGG 179 (205)
Q Consensus 161 ad~Evk~K~r~rH~QLgs~ 179 (205)
.|+++|++.|+.|++++.-
T Consensus 15 GdP~iK~~~R~~~~e~a~~ 33 (48)
T 3c01_A 15 GNPEVKSKRREVHMEILSE 33 (48)
T ss_pred CCHHHHHHHHHHHHHHHHH
T ss_conf 9989999999999999986
No 9
>3arc_J Photosystem II reaction center protein J; PSII, membrane-protein complex, transmembrane alpha-helix, E transport, photosynthesis; HET: OEX CLA PHO BCR PL9 SQD LMG UNL LMT HTG DGD LHG HEM; 1.90A {Thermosynechococcus vulcanus} PDB: 1s5l_J* 3a0b_J* 3a0h_J* 2axt_J* 3bz1_J* 3bz2_J* 3kzi_J* 3prq_J* 3prr_J*
Probab=1.00 E-value=1 Score=13.11 Aligned_cols=32 Identities=25% Similarity=0.440 Sum_probs=21.8
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCEE
Q ss_conf 798811221000478999999998877555031
Q 028726 124 WNLPDWLVHWGHPGNMAVVLFAMGGYGTYLGFC 156 (205)
Q Consensus 124 l~LPE~IkhfGHPlmMawVLLAmG~YA~YLGwQ 156 (205)
--||-|++--.-.+.- +.++.+-.|+.|.|.-
T Consensus 6 GRiPLWlvgtv~G~~v-i~~~giFfyGsYsGlG 37 (40)
T 3arc_J 6 GRIPLWIVATVAGMGV-IVIVGLFFYGAYAGLG 37 (40)
T ss_dssp TSSCHHHHHHHHHHHH-HHHHHHHHHHHSSSTT
T ss_pred CCCCEEEEEEEHHHHH-HHEEEEEEEECCCCCC
T ss_conf 7644786665134646-5114578850445657
No 10
>3b0z_A Flagellar biosynthetic protein FLHB; type III secretion system, protein transport, MEMB protein; 2.45A {Salmonella enterica subsp}
Probab=1.00 E-value=1 Score=13.10 Aligned_cols=18 Identities=17% Similarity=0.185 Sum_probs=12.9
Q ss_pred CCHHHHHHHHHHCHHHHH
Q ss_conf 898887886651400577
Q 028726 161 DDMEEKAKAKDLHPKLLG 178 (205)
Q Consensus 161 ad~Evk~K~r~rH~QLgs 178 (205)
.|+++|++.|+.|++++.
T Consensus 19 GdP~iK~~~R~~~re~a~ 36 (52)
T 3b0z_A 19 GDPHVKGKIRQMQRAAAQ 36 (52)
Done!