Query 041212
Match_columns 337
No_of_seqs 114 out of 177
Neff 4.0
Searched_HMMs 29240
Date Mon Mar 25 07:48:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041212.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/041212hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1v54_B Cytochrome C oxidase po 48.6 7.9 0.00027 35.2 2.2 17 149-167 143-159 (227)
2 2b5b_A Defensin; antibiotic; N 25.1 25 0.00086 23.5 1.1 10 201-210 1-10 (36)
3 2yev_B Cytochrome C oxidase su 30.2 16 0.00055 34.6 0.0 16 150-167 145-160 (337)
4 1fft_B Ubiquinol oxidase; elec 23.3 44 0.0015 31.9 2.8 17 149-167 154-170 (315)
5 4dx8_A Integrin beta-1-binding 21.0 1.8E+02 0.0062 25.4 6.0 57 114-170 18-76 (154)
6 2gsm_B Cytochrome C oxidase su 16.6 58 0.002 30.1 2.0 21 150-173 175-195 (262)
7 3s8f_B Cytochrome C oxidase su 13.7 84 0.0029 27.3 2.1 8 171-178 147-154 (168)
8 1cyx_A CYOA; electron transpor 12.3 92 0.0031 28.2 2.0 23 149-174 44-66 (205)
9 1wve_C 4-cresol dehydrogenase 11.7 96 0.0033 22.1 1.6 20 68-87 57-76 (80)
10 1u9d_A Hypothetical protein VC 11.6 1.6E+02 0.0053 24.5 3.1 31 47-81 59-89 (122)
No 1
>1v54_B Cytochrome C oxidase polypeptide II; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: b.6.1.2 f.17.2.1 PDB: 1oco_B* 1occ_B* 1ocz_B* 1ocr_B* 1v55_B* 2dyr_B* 2dys_B* 2eij_B* 2eik_B* 2eil_B* 2eim_B* 2ein_B* 2occ_B* 2y69_B* 2ybb_M* 2zxw_B* 3abk_B* 3abl_B* 3abm_B* 3ag1_B* ...
Probab=48.62 E-value=7.9 Score=35.20 Aligned_cols=17 Identities=18% Similarity=0.472 Sum_probs=13.9
Q ss_pred ccCCCCCCceEEEEcccCc
Q 041212 149 AMALNPHSGLYLVLTSHDV 167 (337)
Q Consensus 149 ~lP~d~~~gvylVLTa~DV 167 (337)
.+|.+ .-|.+.+||+||
T Consensus 143 vlP~~--~~Vr~~vtS~DV 159 (227)
T 1v54_B 143 VLPME--MTIRMLVSSEDV 159 (227)
T ss_dssp EEETT--SCEEEEEEESSS
T ss_pred EEecC--CEEEEEEEeCcc
Confidence 35776 479999999999
No 2
>2b5b_A Defensin; antibiotic; NMR {Caretta caretta}
Probab=25.11 E-value=25 Score=23.53 Aligned_cols=10 Identities=40% Similarity=1.212 Sum_probs=8.2
Q ss_pred CCCCCCCCCC
Q 041212 201 GAQCPGMCAY 210 (337)
Q Consensus 201 ~~qCPg~CAw 210 (337)
++.|||+|..
T Consensus 1 ekkcpgrctl 10 (36)
T 2b5b_A 1 EKKCPGRCTL 10 (36)
T ss_dssp CCCCSSCSSS
T ss_pred CCCCCcceeE
Confidence 4789999975
No 3
>2yev_B Cytochrome C oxidase subunit 2; electron transport; HET: FME 5PL HAS 4AG 7E8 HEC 7E9; 2.36A {Thermus thermophilus}
Probab=30.17 E-value=16 Score=34.62 Aligned_cols=16 Identities=31% Similarity=0.358 Sum_probs=12.8
Q ss_pred cCCCCCCceEEEEcccCc
Q 041212 150 MALNPHSGLYLVLTSHDV 167 (337)
Q Consensus 150 lP~d~~~gvylVLTa~DV 167 (337)
+|.+ .-|.+.+||.||
T Consensus 145 ~P~~--~~v~~~~ts~DV 160 (337)
T 2yev_B 145 LPAG--VPVELEITSKDV 160 (337)
Confidence 5665 368899999998
No 4
>1fft_B Ubiquinol oxidase; electron transport, cytochrome oxidase, membrane protein, oxidoreductase; HET: HEM HEO; 3.50A {Escherichia coli} SCOP: b.6.1.2 f.17.2.1
Probab=23.32 E-value=44 Score=31.93 Aligned_cols=17 Identities=35% Similarity=0.555 Sum_probs=14.5
Q ss_pred ccCCCCCCceEEEEcccCc
Q 041212 149 AMALNPHSGLYLVLTSHDV 167 (337)
Q Consensus 149 ~lP~d~~~gvylVLTa~DV 167 (337)
.+|.+ .-|.+.+||.||
T Consensus 154 ~lP~g--~~V~~~lTS~DV 170 (315)
T 1fft_B 154 AFPAN--TPVYFKVTSNSV 170 (315)
T ss_dssp CCCSS--SEEEEEECBSSS
T ss_pred EEeCC--CEEEEEEEeCCc
Confidence 47886 489999999999
No 5
>4dx8_A Integrin beta-1-binding protein 1; protein-protien complex, PTB domain, nudix fold, protein-Pro interaction, membrane, nucleus, protein binding; 2.54A {Homo sapiens} PDB: 4dx9_A
Probab=21.00 E-value=1.8e+02 Score=25.42 Aligned_cols=57 Identities=19% Similarity=0.301 Sum_probs=42.5
Q ss_pred cEEEeeEEecCCCCCCCCCC-hHhHHHHHHHhhhccccCCCC-CCceEEEEcccCcccc
Q 041212 114 NIVLSGEFYDTRYSHGAYLS-RLDMQSIIRTAVNKRAMALNP-HSGLYLVLTSHDVQVQ 170 (337)
Q Consensus 114 ~v~l~~qv~D~~ySlGksLs-~~~i~~lv~~ai~~g~lP~d~-~~gvylVLTa~DV~v~ 170 (337)
+|++-|++.+-.-+++++|. +.++.+.|..+-..|.||... ..-+.+-|+..+|.+.
T Consensus 18 ~VKylG~i~~l~~~~~~~~~~~~ell~~ID~aQq~gkLP~~~~~Edvi~svSkyGvkl~ 76 (154)
T 4dx8_A 18 RIKYVGAIEKLKLSEGKGLEGPLDLINYIDVAQQDGKLPFVPPEEEFIMGVSKYGIKVS 76 (154)
T ss_dssp EEEEEEEEEEESCC---CCCHHHHHHHHHHHHHHTTSSCSSCCSCCEEEEEETTEEEEE
T ss_pred EEEEEEEEeecccccCccccCcHHHHHHHHHHHHhCcCCCCCCcCeEEEEEeccCcEEE
Confidence 69999999886567888876 789999999999999888322 1248888888888884
No 6
>2gsm_B Cytochrome C oxidase subunit 2; transmembrane protein complex, oxidoreductase; HET: DMU HEA TRD; 2.00A {Rhodobacter sphaeroides} SCOP: b.6.1.2 f.17.2.1 PDB: 3dtu_B* 3fye_B* 3fyi_B* 3omi_B* 3om3_B* 3oma_B* 3omn_B* 1m56_B* 1m57_B*
Probab=16.64 E-value=58 Score=30.07 Aligned_cols=21 Identities=19% Similarity=0.357 Sum_probs=15.2
Q ss_pred cCCCCCCceEEEEcccCccccccc
Q 041212 150 MALNPHSGLYLVLTSHDVQVQDFC 173 (337)
Q Consensus 150 lP~d~~~gvylVLTa~DV~v~gFC 173 (337)
+|.+ .-|.+.+||.||. .+|.
T Consensus 175 lP~g--~~v~~~~tS~DVi-Hsf~ 195 (262)
T 2gsm_B 175 VPVN--KTVVVQVTGADVI-HSWT 195 (262)
T ss_dssp EETT--SEEEEEEEESSSC-EEEE
T ss_pred EecC--CEEEEEEEECccc-ceee
Confidence 5665 4799999999993 3443
No 7
>3s8f_B Cytochrome C oxidase subunit 2; complex IV, respiratory chain, lipid cubic phase, monoolein, peroxide, electron transport, proton pump; HET: HEM HAS OLC; 1.80A {Thermus thermophilus} PDB: 1ehk_B* 2qpd_B* 3qjq_B* 3qjr_B* 3qju_B* 3qjv_B* 1xme_B* 3s8g_B* 4esl_B* 4ev3_B* 4f05_B* 4fa7_B* 4faa_B* 3qjs_B* 3bvd_B* 2qpe_B* 3qjt_B* 3s3b_B* 3s33_B* 3s39_B* ...
Probab=13.68 E-value=84 Score=27.27 Aligned_cols=8 Identities=38% Similarity=1.074 Sum_probs=4.2
Q ss_pred cccccccc
Q 041212 171 DFCRAVCG 178 (337)
Q Consensus 171 gFC~s~CG 178 (337)
+.|...||
T Consensus 147 g~Cse~CG 154 (168)
T 3s8f_B 147 IICNQYCG 154 (168)
T ss_dssp EECCSCCS
T ss_pred EECCcCCC
Confidence 44555555
No 8
>1cyx_A CYOA; electron transport; 2.30A {Escherichia coli} SCOP: b.6.1.2 PDB: 1cyw_A
Probab=12.26 E-value=92 Score=28.15 Aligned_cols=23 Identities=30% Similarity=0.476 Sum_probs=16.6
Q ss_pred ccCCCCCCceEEEEcccCcccccccc
Q 041212 149 AMALNPHSGLYLVLTSHDVQVQDFCR 174 (337)
Q Consensus 149 ~lP~d~~~gvylVLTa~DV~v~gFC~ 174 (337)
.+|.+ .-|.+.|||.||. .+|..
T Consensus 44 ~lP~g--~~V~~~lTS~DVi-HSF~I 66 (205)
T 1cyx_A 44 AFPAN--TPVYFKVTSNSVM-HSFFI 66 (205)
T ss_dssp EEETT--SCEEEEEEESSSC-EEEEE
T ss_pred EEeCC--CEEEEEEecCCce-eeEEe
Confidence 36776 4799999999994 44443
No 9
>1wve_C 4-cresol dehydrogenase [hydroxylating] cytochrome C subunit; flavocytochrome, electron-transfer, FAD, heme, oxidoreductase; HET: FAD HEM; 1.85A {Pseudomonas putida} SCOP: a.3.1.1 PDB: 1diq_C* 1dii_C*
Probab=11.74 E-value=96 Score=22.15 Aligned_cols=20 Identities=15% Similarity=0.287 Sum_probs=16.3
Q ss_pred cCCcchhhhHHHHHhcCCCC
Q 041212 68 DWSLSQQSTIRDFLYSFSSP 87 (337)
Q Consensus 68 ~ftp~QksiI~DFl~SLs~~ 87 (337)
..|+.|...|.+||.++...
T Consensus 57 ~ls~~ei~~l~~yl~~~~~~ 76 (80)
T 1wve_C 57 YVDDESLTQVAEYLSSLPAP 76 (80)
T ss_dssp TSCHHHHHHHHHHHHHSCCC
T ss_pred CCCHHHHHHHHHHHHHCcCC
Confidence 57888888899999998753
No 10
>1u9d_A Hypothetical protein VC0714; structural genomics, MCSG, protein STR initiative, PSI, midwest center for structural genomics; 1.70A {Vibrio cholerae o1 biovar eltor str} SCOP: d.80.1.5
Probab=11.62 E-value=1.6e+02 Score=24.51 Aligned_cols=31 Identities=19% Similarity=0.406 Sum_probs=22.3
Q ss_pred ccccCCccccCCceEEEEEeecCCcchhhhHHHHH
Q 041212 47 LEYHMGPVLASPINVYIIWYGDWSLSQQSTIRDFL 81 (337)
Q Consensus 47 L~YH~GpvL~g~i~V~lIwYG~ftp~QksiI~DFl 81 (337)
-.||+| .+---|.+-|.|| ++.||..+...+
T Consensus 59 ~~i~~G---~~MP~VeV~~fgR-t~EqK~~la~~I 89 (122)
T 1u9d_A 59 QYFAEG---GVYPMVEVLWFGR-EQQTQDQIAQVI 89 (122)
T ss_dssp CCCCTT---CCCCEEEEEESCC-CHHHHHHHHHHH
T ss_pred EEEecC---CCCCEEEEEEcCC-CHHHHHHHHHHH
Confidence 346788 4544689999997 888887665555
Done!