Query 004659
Match_columns 739
No_of_seqs 124 out of 1140
Neff 6.8
Searched_HMMs 29240
Date Tue Mar 26 18:17:04 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/004659.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_1957-1961//hhsearch_pdb/004659hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1va6_A Glutamate--cysteine lig 1.0 1 1 9.6 -1.4 12 183-194 96-107 (518)
2 4dve_A Biotin transporter BIOY 1.0 1 1 9.4 6.6 10 211-220 15-24 (198)
3 2y69_K Cytochrome C oxidase po 1.0 1 1 9.3 3.4 35 670-707 28-62 (80)
4 3o0r_B Nitric oxide reductase 1.0 1 1 9.2 4.5 57 164-231 26-82 (465)
5 2nq2_A Hypothetical ABC transp 1.0 1 1 8.8 13.6 114 514-677 222-336 (337)
6 2fnf_X Putative RAS effector N 1.0 1 1 8.6 0.7 14 26-39 3-16 (72)
7 2j01_J 50S ribosomal protein L 1.0 1 1 8.6 3.5 34 513-546 116-149 (173)
8 2jwa_A Receptor tyrosine-prote 1.0 1 1 8.6 2.2 17 658-674 25-41 (44)
9 1zav_A 50S ribosomal protein L 1.0 1 1 8.5 3.5 30 518-547 128-157 (180)
10 3mk7_C Cytochrome C oxidase, C 1.0 1 1 8.4 1.8 27 413-440 51-77 (311)
No 1
>1va6_A Glutamate--cysteine ligase; glutathione homeostasis, beta barrel, peptide synthesis, transition state analogue; HET: P2S ADP P6G; 2.10A {Escherichia coli} SCOP: d.128.1.4 PDB: 1v4g_A* 2d32_A* 2d33_A*
Probab=1.00 E-value=1 Score=9.60 Aligned_cols=12 Identities=25% Similarity=0.578 Sum_probs=6.7
Q ss_pred CCCCCCCHHHHH
Q ss_conf 876696048899
Q 004659 183 VEMWWPSNLAQV 194 (739)
Q Consensus 183 ~~l~~P~~la~a 194 (739)
.+.+||.++|..
T Consensus 96 ~e~Lwp~SmP~~ 107 (518)
T 1va6_A 96 DERMWPLSMPSY 107 (518)
T ss_dssp TCEECCSSSCSS
T ss_pred CCEEEECCCCCC
T ss_conf 981721589988
No 2
>4dve_A Biotin transporter BIOY; ECF-transport, ligand-binding domain, biotin binding, membra transport protein; HET: BTN BNG; 2.09A {Lactococcus lactis subsp}
Probab=1.00 E-value=1 Score=9.40 Aligned_cols=10 Identities=0% Similarity=0.049 Sum_probs=4.1
Q ss_pred CCHHHHHHHH
Q ss_conf 4067899999
Q 004659 211 TRMQFFLIVL 220 (739)
Q Consensus 211 s~~k~f~~~f 220 (739)
+|.|-+..+.
T Consensus 15 ~k~r~l~~~a 24 (198)
T 4dve_A 15 QKVKTLTYSA 24 (198)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHHHHHHH
T ss_conf 8899999999
No 3
>2y69_K Cytochrome C oxidase polypeptide 7B; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}
Probab=1.00 E-value=1 Score=9.30 Aligned_cols=35 Identities=17% Similarity=0.351 Sum_probs=16.0
Q ss_pred HCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf 41600000132222243765568799999999870999
Q 004659 670 RYHKRWWQKYNYVLSAALDAGTAFMGVLLFFALQNNDI 707 (739)
Q Consensus 670 r~~~~w~~kynyvlaagL~aG~ai~gii~~~~l~~~g~ 707 (739)
|+.|..++||+-.+ |.+|.+++..+-.+.+...|+
T Consensus 28 k~~pdFHdKYGn~~---L~~Ga~FC~a~W~y~~TQ~GI 62 (80)
T 2y69_K 28 KRAPDFHDKYGNAV---LASGATFCVAVWVYMATQIGI 62 (80)
T ss_dssp --CCCHHHHHHHHH---HHHHHHHHHHHHHHHHHHSCC
T ss_pred CCCCCHHHHCCCEE---EECCHHHHHHHHHHHHEECCE
T ss_conf 57975466618633---444400777568776300230
No 4
>3o0r_B Nitric oxide reductase subunit B; oxidoreductase, electron transport, heme, iron, membrane, CY membrane; HET: HEM HEC; 2.70A {Pseudomonas aeruginosa}
Probab=1.00 E-value=1 Score=9.18 Aligned_cols=57 Identities=14% Similarity=0.125 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHCCC
Q ss_conf 97877888753123210358766960488999999840036644455406789999978777864256
Q 004659 164 TQILGYGWAGMLRRYLVDPVEMWWPSNLAQVSLFRALHEKESKSKGLTRMQFFLIVLAASFAYYSLPG 231 (739)
Q Consensus 164 ~~~lG~~~Ag~lRr~lV~~~~l~~P~~la~a~l~~alh~~~~~~~~~s~~k~f~~~f~~~~~~~~lp~ 231 (739)
--++|..++.+.|-++++|.... ..-+=..++++|..- +-++.......+.++.+|-
T Consensus 26 ~f~vg~l~gll~~~ql~~P~~~~---~~~~fn~~rt~H~~~--------mifw~~~~~~g~~~ylvP~ 82 (465)
T 3o0r_B 26 LFVGQILFGLIMGLQYVVGDFLF---PAIPFNVARMVHTNL--------LIVWLLFGFMGAAYYLVPE 82 (465)
T ss_dssp HHHHHHHHHHHHHHHTTSTTTTT---TTSCHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHCCCCCC---CCCCHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHH
T ss_conf 99999999999999995887568---863268799999999--------9999999999999999999
No 5
>2nq2_A Hypothetical ABC transporter permease protein HI1471; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}
Probab=1.00 E-value=1 Score=8.80 Aligned_cols=114 Identities=18% Similarity=0.136 Sum_probs=58.5
Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCC
Q ss_conf 63311245339981669999878467768889999999998510236765789999631341237756375543315762
Q 004659 514 LSDLKLGHYMKIPPRCMYTAQLVGTIVSGVVNLGVAWWMLESIENICDVESLHPDSQWTCPKYRVTFDASVIWGLIGPRR 593 (739)
Q Consensus 514 ~~DlK~G~y~~~pPr~~f~~Qi~Gtivg~~v~~~v~~~~~~~~~~~~~~~~~~~~~~~t~p~~~~~~~~sv~wg~~gp~~ 593 (739)
.-|=...+-+|.++|.....-+.-+.+-+.+++.+. ..+.= -.+-.|... ++
T Consensus 222 ~lg~~~A~~lGv~v~~~r~~~l~l~all~a~ava~v----G~I~f----------vGLivPhia--------------r~ 273 (337)
T 2nq2_A 222 SLDEKEAKALGVKMAPLRWLVIFLSGSLVACQVAIS----GSIGW----------VGLIIPHLS--------------RM 273 (337)
T ss_dssp GSCHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHH----CCCCS----------STTHHHHHH--------------HH
T ss_pred CCCHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHH----HHHHH----------HHHHHHHHH--------------HH
T ss_conf 178999987899779999999999999999999996----79999----------999999999--------------99
Q ss_pred CCCCCCCH-HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHCCCCCCCCCHHCHHHHHHHHHHHHHHHHCC
Q ss_conf 24899944-68999999997867999998752588866665542588654024678773130278999999999998416
Q 004659 594 LFGPGGMY-RNLVWLFLVGAVLPVPVWVLSKVFPEKKWIPLINIPVISYGFAGMPPATPTNIASWLITGMIFNYFVFRYH 672 (739)
Q Consensus 594 ~f~~g~~y-~~l~~~~liGa~l~v~~~~l~~~~p~~~~~~~~~~p~~~~g~~~~~p~~~~~~~~~~~vG~~~~~~~rr~~ 672 (739)
++++ ++ ..++.+.++|+++-+....+.|... ..+ +|. +..+.++-+-++-+.++|++
T Consensus 274 l~g~--~~~~llp~s~l~Ga~~ll~ad~lar~~~------p~e----------lPv----G~~taliG~p~fl~ll~r~~ 331 (337)
T 2nq2_A 274 LVGA--NHQSLLPCTMLVGATYMLLVDNVARSLS------DAE----------IPI----SILTALIGAPLFGVLVYKLK 331 (337)
T ss_dssp HHCS--CHHHHHHHHHHHHHHHHHHHHHHHHHSC------SSC----------CCH----HHHHHHHHHHHHHHHHHCC-
T ss_pred HHCC--CHHHHHHHHHHHHHHHHHHHHHHHHHHC------CCC----------CCH----HHHHHHHHHHHHHHHHHHHC
T ss_conf 9679--8366999999999999999999997702------467----------889----99999999999999999703
Q ss_pred CCCCC
Q ss_conf 00000
Q 004659 673 KRWWQ 677 (739)
Q Consensus 673 ~~w~~ 677 (739)
++|.+
T Consensus 332 ~~~~~ 336 (337)
T 2nq2_A 332 RGGMN 336 (337)
T ss_dssp -----
T ss_pred CCCCC
T ss_conf 32035
No 6
>2fnf_X Putative RAS effector NORE1; zinc, signal transduction, apoptosis, cysteine rich domain; NMR {Mus musculus}
Probab=1.00 E-value=1 Score=8.59 Aligned_cols=14 Identities=29% Similarity=0.558 Sum_probs=5.7
Q ss_pred HHHHCCCCCCCCCC
Q ss_conf 66314889899999
Q 004659 26 EVALIVPETDDPTM 39 (739)
Q Consensus 26 ev~~~v~~~ddp~~ 39 (739)
+||.+....+||++
T Consensus 3 ~~~~~~~~~~dp~~ 16 (72)
T 2fnf_X 3 DVRSIFEQPQDPRV 16 (72)
T ss_dssp -----------CCC
T ss_pred CHHHHCCCCCCCCC
T ss_conf 32120158889664
No 7
>2j01_J 50S ribosomal protein L10; ribosome, tRNA, paromomycin, mRNA, translation; 2.8A {Thermus thermophilus} PDB: 2j03_J 3d5b_J 3d5d_J 3i8i_Y 3kir_J 3kit_J 3kiw_J 3kiy_J 3mrz_I 3ms1_I 3pyt_I 3pyr_I 3pyo_I 3pyv_I
Probab=1.00 E-value=1 Score=8.58 Aligned_cols=34 Identities=21% Similarity=0.337 Sum_probs=25.5
Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf 7633112453399816699998784677688899
Q 004659 513 FLSDLKLGHYMKIPPRCMYTAQLVGTIVSGVVNL 546 (739)
Q Consensus 513 ~~~DlK~G~y~~~pPr~~f~~Qi~Gtivg~~v~~ 546 (739)
++..-.+-.+.+.|.|...++|++|++-+...+.
T Consensus 116 ~~~~~~v~~la~LPs~eel~a~l~g~l~ap~~~~ 149 (173)
T 2j01_J 116 ILTAKDVEALAELPTMDELRAELVGVLQAPMAEL 149 (173)
T ss_pred ECCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf 8289999999669999999999999999999999
No 8
>2jwa_A Receptor tyrosine-protein kinase ERBB-2; transmembrane helix dimer, protein kinase receptor membrane domain, ATP-binding, glycoprotein; NMR {Homo sapiens} PDB: 2ks1_A
Probab=1.00 E-value=1 Score=8.57 Aligned_cols=17 Identities=18% Similarity=0.622 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHCCCC
Q ss_conf 99999999999841600
Q 004659 658 LITGMIFNYFVFRYHKR 674 (739)
Q Consensus 658 ~~vG~~~~~~~rr~~~~ 674 (739)
++++..+-.|+|||+.+
T Consensus 25 vi~~l~~~~~~RRR~~~ 41 (44)
T 2jwa_A 25 VVLGVVFGILIKRRQQK 41 (44)
T ss_dssp HHHHHHHHHHHHHHCSC
T ss_pred HHHHHHHHHHEEHHHHH
T ss_conf 99999988412044564
No 9
>1zav_A 50S ribosomal protein L10; ribosome structure and function, L10-L12 complex structure, L10E structure, L7/12 ribosomal stalk; 1.90A {Thermotoga maritima} SCOP: d.58.62.1 PDB: 1zaw_A 1zax_A
Probab=1.00 E-value=1 Score=8.53 Aligned_cols=30 Identities=23% Similarity=0.358 Sum_probs=0.0
Q ss_pred HHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 124533998166999987846776888999
Q 004659 518 KLGHYMKIPPRCMYTAQLVGTIVSGVVNLG 547 (739)
Q Consensus 518 K~G~y~~~pPr~~f~~Qi~Gtivg~~v~~~ 547 (739)
.+-.+.+.|.|...++|++|++-+...+..
T Consensus 128 ~v~~la~LPs~eel~a~l~g~l~ap~~~l~ 157 (180)
T 1zav_A 128 EVENIAKLPSKEELYAMLVGRVKAPITGLV 157 (180)
T ss_dssp HHHHHHTCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHCCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf 999995699999999999999999999999
No 10
>3mk7_C Cytochrome C oxidase, CBB3-type, subunit P; TM helices, oxidoreductase; HET: HEM HEC FC6; 3.20A {Pseudomonas stutzeri}
Probab=1.00 E-value=1 Score=8.42 Aligned_cols=27 Identities=26% Similarity=0.898 Sum_probs=0.0
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHEEEEEC
Q ss_conf 5987748999999999998741343313
Q 004659 413 YKQVPQWWFYVLLLGSIGLSLLMSFVWK 440 (739)
Q Consensus 413 y~~vP~ww~~~~~v~s~~l~i~~~~~~~ 440 (739)
.+.+|.||.. .++++++.+++....|+
T Consensus 51 ~nplp~ww~~-~f~~~iv~~~~y~~~yp 77 (311)
T 3mk7_C 51 DNPLPRWWFL-LFIGTLVFGILYLVLYP 77 (311)
T ss_dssp CCCCCHHHHH-HHHHHHHHHHHHHHHST
T ss_pred CCCCCHHHHH-HHHHHHHHHHHHHHHHH
T ss_conf 3899749999-99999999999999985
Done!