Query 030213
Match_columns 181
No_of_seqs 22 out of 24
Neff 2.4
Searched_HMMs 46136
Date Fri Mar 29 10:17:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030213.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030213hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02790 COX2_TM: Cytochrome C 73.9 0.73 1.6E-05 31.7 -0.8 24 141-164 61-84 (84)
2 PF04654 DUF599: Protein of un 29.2 12 0.00027 31.2 -1.0 28 143-170 182-211 (216)
3 MTH00154 COX2 cytochrome c oxi 26.5 48 0.001 28.1 2.0 31 141-171 60-90 (227)
4 MTH00168 COX2 cytochrome c oxi 23.9 42 0.0009 28.3 1.2 36 141-176 60-95 (225)
5 MTH00023 COX2 cytochrome c oxi 23.5 54 0.0012 28.0 1.8 33 141-173 69-101 (240)
6 TIGR02866 CoxB cytochrome c ox 21.5 48 0.001 27.0 1.1 32 138-169 52-84 (201)
7 MTH00008 COX2 cytochrome c oxi 20.6 60 0.0013 27.5 1.5 32 140-171 59-90 (228)
8 MTH00051 COX2 cytochrome c oxi 20.0 71 0.0015 27.2 1.8 32 140-171 61-92 (234)
9 MTH00038 COX2 cytochrome c oxi 18.8 52 0.0011 27.9 0.8 33 141-173 60-92 (229)
10 MTH00098 COX2 cytochrome c oxi 18.1 53 0.0011 27.9 0.7 33 141-173 60-92 (227)
No 1
>PF02790 COX2_TM: Cytochrome C oxidase subunit II, transmembrane domain This family corresponds to chains b and o.; InterPro: IPR011759 Cytochrome c oxidase (1.9.3.1 from EC) [, ] is an oligomeric enzymatic complex which is a component of the respiratory chain and is involved in the transfer of electrons from cytochrome c to oxygen. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. The enzyme complex consists of 3-4 subunits (prokaryotes) to up to 13 polypeptides (mammals). Subunit 2 (CO II) transfers the electrons from cytochrome c to the catalytic subunit 1. It contains two adjacent transmembrane regions in its N terminus and the major part of the protein is exposed to the periplasmic or to the mitochondrial intermembrane space, respectively. CO II provides the substrate-binding site and contains a copper centre called Cu(A) (see IPR001505 from INTERPRO), probably the primary acceptor in cytochrome c oxidase. An exception is the corresponding subunit of the cbb3-type oxidase which lacks the copper A redox-centre. Several bacterial CO II have a C-terminal extension that contains a covalently bound haem c. The N-terminal domain of cytochrome C oxidase contains two transmembrane alpha-helices. ; GO: 0004129 cytochrome-c oxidase activity, 0005507 copper ion binding, 0009055 electron carrier activity, 0022900 electron transport chain, 0016021 integral to membrane; PDB: 3VRJ_C 2EIN_B 3AG3_B 2DYR_O 3AG1_B 2EIK_O 3ASN_B 1OCR_B 2EIJ_B 1OCC_O ....
Probab=73.87 E-value=0.73 Score=31.69 Aligned_cols=24 Identities=25% Similarity=0.645 Sum_probs=21.4
Q ss_pred CcceEEeehhHHHHhHhhcchhhh
Q 030213 141 KGSFLWILAPVVLISSLILPQMFL 164 (181)
Q Consensus 141 ~~SlLW~lGP~vLVASfilP~lyL 164 (181)
.--+.|-+.|++++..+.+|+++|
T Consensus 61 ~lE~~WTiiP~iiLl~l~~pSl~l 84 (84)
T PF02790_consen 61 KLEIIWTIIPAIILLFLAFPSLKL 84 (84)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhhhhhhHHHHHHHHHHHhhhccC
Confidence 355789999999999999999986
No 2
>PF04654 DUF599: Protein of unknown function, DUF599; InterPro: IPR006747 This family includes several uncharacterised proteins.
Probab=29.22 E-value=12 Score=31.24 Aligned_cols=28 Identities=18% Similarity=0.522 Sum_probs=19.1
Q ss_pred ceEEeehhHHHHhHh--hcchhhhhHHHHH
Q 030213 143 SFLWILAPVVLISSL--ILPQMFLGNVIED 170 (181)
Q Consensus 143 SlLW~lGP~vLVASf--ilP~lyLrkVisa 170 (181)
-++|++||.+++++- ++.-+|-|..-+.
T Consensus 182 ~l~W~~gP~~~~~~t~~vv~~L~~rdf~S~ 211 (216)
T PF04654_consen 182 LLLWFFGPWALIAATVLVVAVLYRRDFRSR 211 (216)
T ss_pred HHHHHHhhHHHHHHHHHHHHHHHHHHhcch
Confidence 378999999887664 4566666654443
No 3
>MTH00154 COX2 cytochrome c oxidase subunit II; Provisional
Probab=26.55 E-value=48 Score=28.13 Aligned_cols=31 Identities=16% Similarity=0.532 Sum_probs=24.8
Q ss_pred CcceEEeehhHHHHhHhhcchhhhhHHHHHH
Q 030213 141 KGSFLWILAPVVLISSLILPQMFLGNVIEDF 171 (181)
Q Consensus 141 ~~SlLW~lGP~vLVASfilP~lyLrkVisav 171 (181)
.--+.|-+.|++++..+.+|++.+-...+..
T Consensus 60 ~lEiiWTviP~iiL~~l~~ps~~~l~~~~~~ 90 (227)
T MTH00154 60 EIEIIWTILPAIILIFIALPSLRLLYLLDEV 90 (227)
T ss_pred hhheEeEehHHHHHHHHHHHHHHHHHhcccc
Confidence 4468999999999999999998766555443
No 4
>MTH00168 COX2 cytochrome c oxidase subunit II; Provisional
Probab=23.94 E-value=42 Score=28.32 Aligned_cols=36 Identities=28% Similarity=0.564 Sum_probs=27.3
Q ss_pred CcceEEeehhHHHHhHhhcchhhhhHHHHHHhcccc
Q 030213 141 KGSFLWILAPVVLISSLILPQMFLGNVIEDFIKDNL 176 (181)
Q Consensus 141 ~~SlLW~lGP~vLVASfilP~lyLrkVisavfeDSl 176 (181)
.--+.|.+.|++++..+.+|++.+=...+..-++.+
T Consensus 60 ~lEi~WtviP~iil~~l~~~s~~~l~~~~~~~~~~~ 95 (225)
T MTH00168 60 MIEFVWTIIPAFILISLALPSLRLLYLMDEIDKPDL 95 (225)
T ss_pred hhhhhhhHHHHHHHHHHHHHHHHHHHhhhhhcccce
Confidence 456789999999999999999976555555444443
No 5
>MTH00023 COX2 cytochrome c oxidase subunit II; Validated
Probab=23.55 E-value=54 Score=28.03 Aligned_cols=33 Identities=18% Similarity=0.489 Sum_probs=25.4
Q ss_pred CcceEEeehhHHHHhHhhcchhhhhHHHHHHhc
Q 030213 141 KGSFLWILAPVVLISSLILPQMFLGNVIEDFIK 173 (181)
Q Consensus 141 ~~SlLW~lGP~vLVASfilP~lyLrkVisavfe 173 (181)
.--+.|-+.|++++..+.+|++.+=..++..-+
T Consensus 69 ~lEi~WTviP~iiL~~l~~~s~~~ly~~~~~~~ 101 (240)
T MTH00023 69 FLEIVWTIIPAVILVFIALPSLKLLYLMDEVVS 101 (240)
T ss_pred chheeeehHHHHHHHHHHHHHHHHHHhcccccc
Confidence 456789999999999999999876555544433
No 6
>TIGR02866 CoxB cytochrome c oxidase, subunit II. Cytochrome c oxidase is the terminal electron acceptor of mitochondria (and one of several possible acceptors in prokaryotes) in the electron transport chain of aerobic respiration. The enzyme couples the oxidation of reduced cytochrome c with the reduction of molecular oxygen to water. This process results in the pumping of four protons across the membrane which are used in the proton gradient powered synthesis of ATP. The oxidase contains two heme a cofactors and three copper atoms as well as other bound ions.
Probab=21.52 E-value=48 Score=27.00 Aligned_cols=32 Identities=6% Similarity=0.208 Sum_probs=20.8
Q ss_pred cCCCcceEEeehh-HHHHhHhhcchhhhhHHHH
Q 030213 138 QEDKGSFLWILAP-VVLISSLILPQMFLGNVIE 169 (181)
Q Consensus 138 ~~~~~SlLW~lGP-~vLVASfilP~lyLrkVis 169 (181)
+..+--+.|.+.| +++++.+++|...+..+-+
T Consensus 52 ~~~~lEi~wtiiP~vivl~l~~~~~~~~~~~~~ 84 (201)
T TIGR02866 52 GNRALEYTWTVIPLIIVVGLIAATVLGTLYLER 84 (201)
T ss_pred CCceEEEEeehHhHHHheeEehHHHHHHHHhcc
Confidence 4455678999999 4555566677665554433
No 7
>MTH00008 COX2 cytochrome c oxidase subunit II; Validated
Probab=20.57 E-value=60 Score=27.54 Aligned_cols=32 Identities=16% Similarity=0.466 Sum_probs=25.0
Q ss_pred CCcceEEeehhHHHHhHhhcchhhhhHHHHHH
Q 030213 140 DKGSFLWILAPVVLISSLILPQMFLGNVIEDF 171 (181)
Q Consensus 140 ~~~SlLW~lGP~vLVASfilP~lyLrkVisav 171 (181)
..-.+.|-+.|++++..+.+|++.+=-..+..
T Consensus 59 ~~lE~iWTviP~~il~~l~~ps~~~ly~~~~~ 90 (228)
T MTH00008 59 QQIETIWTILPALILLFLAFPSLRLLYLMDEV 90 (228)
T ss_pred ceeeeeeehHHHHHHHHHHHHHHHHHHhcccc
Confidence 34568999999999999999999765444433
No 8
>MTH00051 COX2 cytochrome c oxidase subunit II; Provisional
Probab=20.02 E-value=71 Score=27.23 Aligned_cols=32 Identities=16% Similarity=0.442 Sum_probs=24.9
Q ss_pred CCcceEEeehhHHHHhHhhcchhhhhHHHHHH
Q 030213 140 DKGSFLWILAPVVLISSLILPQMFLGNVIEDF 171 (181)
Q Consensus 140 ~~~SlLW~lGP~vLVASfilP~lyLrkVisav 171 (181)
..--+.|-+.|++++..+.+|++.+=...+..
T Consensus 61 ~~lEiiWTviP~iiL~~l~~~s~~~ly~~~~~ 92 (234)
T MTH00051 61 TLIEIIWTLIPAAILIFIAFPSLKLLYLMDEV 92 (234)
T ss_pred ceeeeeeeeHHHHHHHHHHHHHHHHHHhcccC
Confidence 34568999999999999999999765444443
No 9
>MTH00038 COX2 cytochrome c oxidase subunit II; Provisional
Probab=18.84 E-value=52 Score=27.88 Aligned_cols=33 Identities=15% Similarity=0.434 Sum_probs=25.7
Q ss_pred CcceEEeehhHHHHhHhhcchhhhhHHHHHHhc
Q 030213 141 KGSFLWILAPVVLISSLILPQMFLGNVIEDFIK 173 (181)
Q Consensus 141 ~~SlLW~lGP~vLVASfilP~lyLrkVisavfe 173 (181)
.--+.|.+.|++++..+.+|++.+=-..+..-+
T Consensus 60 ~lEi~WTiiP~iil~~l~~~s~~~ly~~~~~~~ 92 (229)
T MTH00038 60 ELETIWTIVPAFILIFIALPSLQLLYLMDEVNN 92 (229)
T ss_pred hHHhhHhHHHHHHHHHHHHHHHHHHHhhhhhcc
Confidence 456799999999999999999876655554433
No 10
>MTH00098 COX2 cytochrome c oxidase subunit II; Validated
Probab=18.13 E-value=53 Score=27.91 Aligned_cols=33 Identities=12% Similarity=0.459 Sum_probs=26.0
Q ss_pred CcceEEeehhHHHHhHhhcchhhhhHHHHHHhc
Q 030213 141 KGSFLWILAPVVLISSLILPQMFLGNVIEDFIK 173 (181)
Q Consensus 141 ~~SlLW~lGP~vLVASfilP~lyLrkVisavfe 173 (181)
+--+.|-+.|++++..+.+|++.+=...+..-+
T Consensus 60 ~lE~~WTviP~iil~~l~~~s~~~l~~~~~~~~ 92 (227)
T MTH00098 60 EVETIWTILPAIILILIALPSLRILYMMDEINN 92 (227)
T ss_pred chhhhhHHHHHHHHHHHHHHHHHHHHhhhhccc
Confidence 346789999999999999999987665554433
Done!