RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2379
(585 letters)
>gnl|CDD|131890 TIGR02843, CyoB, cytochrome o ubiquinol oxidase, subunit I.
Cytochrome o terminal oxidase complex is the component
of the aerobic respiratory chain which reacts with
oxygen, reducing it to water with the concomitant
transport of 4 protons across the membrane. Also known
as the cytochrome bo complex, cytochrome o ubiquinol
oxidase contains four subunits, two heme b cofactors and
a copper atom which is believed to be the oxygen active
site. This complex is structurally related to the
cytochrome caa3 oxidases which utilize cytochrome c as
the reductant and contain heme a cofactors, as well as
the intermediate form aa3 oxidases which also react
directly with quinones as the reductant [Energy
metabolism, Electron transport].
Length = 646
Score = 954 bits (2467), Expect = 0.0
Identities = 401/580 (69%), Positives = 472/580 (81%), Gaps = 1/580 (0%)
Query: 1 MLFRGFTDAVMMRLQQAISFGSSFGYLPPEHYNQIFTAHGVIMIFFVAMPLVTGIINFIV 60
ML RGF DA+MMR QQA++ G S GYLPP HY+QIFTAHGVIMIFFVAMP V G++N +V
Sbjct: 67 MLLRGFADAIMMRTQQALASGGSAGYLPPHHYDQIFTAHGVIMIFFVAMPFVFGLMNLVV 126
Query: 61 PLQIGARDVAFPFLNNLSFWMTSGGAILVMISLFIGEFASTGWLGYPPLSGIAQSPGVGV 120
PLQIGARDVAFPFLN+LSFW+T GAILV +SL +GEFA TGWL YPPLS + SPGVGV
Sbjct: 127 PLQIGARDVAFPFLNSLSFWLTVVGAILVNVSLGVGEFAQTGWLAYPPLSELQYSPGVGV 186
Query: 121 DYYIWSLQIAGIGTLLSGINMIATIIKMRAPGMKLMNMPIFTWTALCTNILIVAAFPVLT 180
DYYIW+LQI+GIGTLL+GIN TIIKMRAPGM LM MP+FTWT+LC+N+LI+A+FP+LT
Sbjct: 187 DYYIWALQISGIGTLLTGINFFVTIIKMRAPGMTLMKMPVFTWTSLCSNVLIIASFPILT 246
Query: 181 SVLFLSTLDRYIGTHFFTNDLGGNIMMYVNLIWIWGHPEVYILVLPVFGIFSEVVSTFSS 240
L L TLDRY+G HFFTN+ GGN MMYVNLIW WGHPEVYIL+LP FGIFSEVV+TFS
Sbjct: 247 VTLALLTLDRYLGMHFFTNEAGGNPMMYVNLIWAWGHPEVYILILPAFGIFSEVVATFSR 306
Query: 241 KRLFGYSSMVYATVVITLLSYIVWLHHFFTMGSGANVNAFFGITTMIISIPTGAKIFNWL 300
KRLFGY+SMV+AT+ IT+LS+IVWLHHFFTMG+GANVNAFFGI TMII+IPTG KIFNWL
Sbjct: 307 KRLFGYTSMVWATIAITVLSFIVWLHHFFTMGAGANVNAFFGIATMIIAIPTGVKIFNWL 366
Query: 301 FTMYRGRIRFEVPILWTIGFMITFVIGGMAGVILAVPAANFLLHNSLFLVAHFHNVIIGG 360
FTMY+GRIRFE P+LWTIGFM+TF IGGM GV+LAVP A+F+LHNSLFL+AHFHNVIIGG
Sbjct: 367 FTMYKGRIRFETPMLWTIGFMVTFSIGGMTGVLLAVPPADFVLHNSLFLIAHFHNVIIGG 426
Query: 361 VLFGLMSGINYWFPKAFGYKLEPFWGKCSFWFWLIGFYVAFMPLYILGFMGVTRRMSHFE 420
V+FG +G+ YWFPKAFG+KL GK SFW W IGFY+AFMPLYILGFMG+TRR++H++
Sbjct: 427 VVFGCFAGLTYWFPKAFGFKLNEKLGKRSFWCWFIGFYLAFMPLYILGFMGMTRRLNHYD 486
Query: 421 DISLQIWFQIAAFGTLLIAMGILSFIIQLIVSYRKRHTLIDITGDPWNGRTLEWSTSSPP 480
+ IAAFG LIA GIL IIQ+ VS R R D TGDPW GRTLEWSTSSPP
Sbjct: 487 NPEWHPMLIIAAFGAFLIACGILCQIIQIFVSIRDRDQNRDTTGDPWGGRTLEWSTSSPP 546
Query: 481 PVYNFAFIPLIHQSDSWWYMKKNNFKFPK-DKFQDILMPKNTNIGILISIFSLIMGFALV 539
P YNFA IP + D++W MKK +P+ K++DI MPKNT G +I FSL+ GFALV
Sbjct: 547 PFYNFAVIPKVQDRDAFWDMKKKGVAYPRPAKYEDIHMPKNTAAGFIIGAFSLVFGFALV 606
Query: 540 WHMWLLTIISFIITLIIVIYNTFNYKRNYYISSEEITCIE 579
WH+W L II F+ + +I +F+ +YY+ +EE+ IE
Sbjct: 607 WHIWWLAIIGFVGIIATLIVRSFDDDVDYYVPAEEVKKIE 646
>gnl|CDD|184978 PRK15017, PRK15017, cytochrome o ubiquinol oxidase subunit I;
Provisional.
Length = 663
Score = 777 bits (2009), Expect = 0.0
Identities = 379/582 (65%), Positives = 466/582 (80%), Gaps = 1/582 (0%)
Query: 1 MLFRGFTDAVMMRLQQAISFGSSFGYLPPEHYNQIFTAHGVIMIFFVAMPLVTGIINFIV 60
ML RGF DA+MMR QQA++ G+LPP HY+QIFTAHGVIMIFFVAMP V G++N +V
Sbjct: 68 MLLRGFADAIMMRSQQALASAGEAGFLPPHHYDQIFTAHGVIMIFFVAMPFVIGLMNLVV 127
Query: 61 PLQIGARDVAFPFLNNLSFWMTSGGAILVMISLFIGEFASTGWLGYPPLSGIAQSPGVGV 120
PLQIGARDVAFPFLNNLSFW T G ILV +SL +GEFA TGWL YPPLSGI SPGVGV
Sbjct: 128 PLQIGARDVAFPFLNNLSFWFTVVGVILVNVSLGVGEFAQTGWLAYPPLSGIEYSPGVGV 187
Query: 121 DYYIWSLQIAGIGTLLSGINMIATIIKMRAPGMKLMNMPIFTWTALCTNILIVAAFPVLT 180
DY+IWSLQ++GIGT L+GIN TI+KMRAPGM + MP+FTW +LC N+LI+A+FP+LT
Sbjct: 188 DYWIWSLQLSGIGTTLTGINFFVTILKMRAPGMTMFKMPVFTWASLCANVLIIASFPILT 247
Query: 181 SVLFLSTLDRYIGTHFFTNDLGGNIMMYVNLIWIWGHPEVYILVLPVFGIFSEVVSTFSS 240
+ L TLDRY+GTHFFTND+GGN+MMY+NLIW WGHPEVYIL+LPVFG+FSE+ +TFS
Sbjct: 248 VTVALLTLDRYLGTHFFTNDMGGNMMMYINLIWAWGHPEVYILILPVFGVFSEIAATFSR 307
Query: 241 KRLFGYSSMVYATVVITLLSYIVWLHHFFTMGSGANVNAFFGITTMIISIPTGAKIFNWL 300
KRLFGY+S+V+ATV IT+LS+IVWLHHFFTMG+GANVNAFFGITTMII+IPTG KIFNWL
Sbjct: 308 KRLFGYTSLVWATVCITVLSFIVWLHHFFTMGAGANVNAFFGITTMIIAIPTGVKIFNWL 367
Query: 301 FTMYRGRIRFEVPILWTIGFMITFVIGGMAGVILAVPAANFLLHNSLFLVAHFHNVIIGG 360
FTMY+GRI F +LWTIGF++TF +GGM GV+LAVP A+F+LHNSLFL+AHFHNVIIGG
Sbjct: 368 FTMYQGRIVFHSAMLWTIGFIVTFSVGGMTGVLLAVPGADFVLHNSLFLIAHFHNVIIGG 427
Query: 361 VLFGLMSGINYWFPKAFGYKLEPFWGKCSFWFWLIGFYVAFMPLYILGFMGVTRRMSHFE 420
V+FG +G+ YW+PKAFG+KL WGK +FWFW+IGF+VAFMPLY LGFMG+TRR+S
Sbjct: 428 VVFGCFAGMTYWWPKAFGFKLNETWGKRAFWFWIIGFFVAFMPLYALGFMGMTRRLSQQI 487
Query: 421 DISLQIWFQIAAFGTLLIAMGILSFIIQLIVSYRKRHTLIDITGDPWNGRTLEWSTSSPP 480
D IAA G LIA+GIL +IQ+ VS R R D+TGDPW GRTLEW+TSSPP
Sbjct: 488 DPQFHTMLMIAASGAALIALGILCQVIQMYVSIRDRDQNRDLTGDPWGGRTLEWATSSPP 547
Query: 481 PVYNFAFIPLIHQSDSWWYMKKNNFKFPK-DKFQDILMPKNTNIGILISIFSLIMGFALV 539
P YNFA +P +H+ D++W MK+ + + D +++I MPKN+ GI+I+ FS I GFA++
Sbjct: 548 PFYNFAVVPHVHERDAFWEMKEKGEAYKQPDHYEEIHMPKNSGAGIVIAAFSTIFGFAMI 607
Query: 540 WHMWLLTIISFIITLIIVIYNTFNYKRNYYISSEEITCIEKK 581
WH+W L I+ F +I I +F+ +YY+ EI +E +
Sbjct: 608 WHIWWLAIVGFAGMIITWIVKSFDEDVDYYVPVAEIEKLENQ 649
>gnl|CDD|238832 cd01662, Ubiquinol_Oxidase_I, Ubiquinol oxidase subunit I.
Ubiquinol oxidase, the terminal oxidase in the
respiratory chains of aerobic bacteria, is a multi-chain
transmembrane protein located in the cell membrane. It
catalyzes the reduction of O2 and simultaneously pumps
protons across the membrane. The number of subunits in
ubiquinol oxidase varies from two to five. Subunit I
contains a heme-copper binuclear center (the active site
where O2 is reduced to water) formed by a high-spin heme
and a copper ion. It also contains a low-spin heme,
believed to participate in the transfer of electrons
from ubiquinol to the binuclear center. For every
reduction of an O2 molecule, eight protons are taken
from the inside aqueous compartment and four electrons
are taken from ubiquinol on the opposite side of the
membrane. The four electrons and four of the protons
are used in the reduction of O2; the four remaining
protons are pumped across the membrane. This charge
separation of four charges contributes to the
electrochemical gradient used for ATP synthesis. Two
proton channels, the D-pathway and K-pathway, leading to
the binuclear center have been identified in subunit I.
It is generally believed that the channels contain water
molecules that act as 'proton wires' to transfer the
protons. A well-defined pathway for the transfer of
pumped protons beyond the binuclear center has not been
identified. Electrons are believed to be transferred
directly from ubiquinol (the electron donor) to the
low-spin heme, and directly from the low-spin heme to
the binuclear center.
Length = 501
Score = 749 bits (1937), Expect = 0.0
Identities = 302/486 (62%), Positives = 355/486 (73%), Gaps = 6/486 (1%)
Query: 1 MLFRGFTDAVMMRLQQAISFGSSFGYLPPEHYNQIFTAHGVIMIFFVAMPLVTGIINFIV 60
RG DA++MR Q A+ L PEHYNQIFT HG IMIF AMPLV G++N++V
Sbjct: 21 FFLRGGVDALLMRTQLALPGNDF---LSPEHYNQIFTMHGTIMIFLFAMPLVFGLMNYLV 77
Query: 61 PLQIGARDVAFPFLNNLSFWMTSGGAILVMISLFIGEFASTGWLGYPPLSGIAQSPGVGV 120
PLQIGARDVAFP LN LSFW+ G +L+ SL IG F GW YPPLSG+ SPGVGV
Sbjct: 78 PLQIGARDVAFPRLNALSFWLFLFGGLLLNASLLIGGFPDAGWFAYPPLSGLEYSPGVGV 137
Query: 121 DYYIWSLQIAGIGTLLSGINMIATIIKMRAPGMKLMNMPIFTWTALCTNILIVAAFPVLT 180
DY+I LQ +GIGTLL IN I TI+KMRAPGM LM MPIFTWT L T+ILI+ AFPVLT
Sbjct: 138 DYWILGLQFSGIGTLLGAINFIVTILKMRAPGMTLMRMPIFTWTTLVTSILILFAFPVLT 197
Query: 181 SVLFLSTLDRYIGTHFFTNDLGGNIMMYVNLIWIWGHPEVYILVLPVFGIFSEVVSTFSS 240
+ L L LDRY GTHFFTN LGGN M++ +L WI+GHPEVYIL+LP FGIFSE+V TFS
Sbjct: 198 AALALLELDRYFGTHFFTNALGGNPMLWQHLFWIFGHPEVYILILPAFGIFSEIVPTFSR 257
Query: 241 KRLFGYSSMVYATVVITLLSYIVWLHHFFTMGSGANVNAFFGITTMIISIPTGAKIFNWL 300
K LFGY SMVYATV I LS+ VW+HH FT G+GA VNAFF I TMII++PTG KIFNWL
Sbjct: 258 KPLFGYRSMVYATVAIGFLSFGVWVHHMFTTGAGALVNAFFSIATMIIAVPTGVKIFNWL 317
Query: 301 FTMYRGRIRFEVPILWTIGFMITFVIGGMAGVILAVPAANFLLHNSLFLVAHFHNVIIGG 360
FTM+RGRIRFE P+LW IGF++TFVIGG+ GV+LA P A+F +H++ F+VAHFH V+IGG
Sbjct: 318 FTMWRGRIRFETPMLWAIGFLVTFVIGGLTGVMLASPPADFQVHDTYFVVAHFHYVLIGG 377
Query: 361 VLFGLMSGINYWFPKAFGYKLEPFWGKCSFWFWLIGFYVAFMPLYILGFMGVTRRMSHFE 420
V+F L +G YWFPK FG L GK SFW W IGF + F P++ILG MG+ RR+ +
Sbjct: 378 VVFPLFAGFYYWFPKMFGRMLNERLGKWSFWLWFIGFNLTFFPMHILGLMGMPRRVYTYL 437
Query: 421 -DISLQIWFQIAAFGTLLIAMGILSFIIQLIVSYRKRHTLIDITGDPWNGRTLEWSTSSP 479
I+ G LIA G+L F+I +IVS RK D TGDPW RTLEW+TSSP
Sbjct: 438 PGPGWDPLNLISTIGAFLIAAGVLLFLINVIVSIRKGKR--DATGDPWGARTLEWATSSP 495
Query: 480 PPVYNF 485
PP YNF
Sbjct: 496 PPAYNF 501
>gnl|CDD|223913 COG0843, CyoB, Heme/copper-type cytochrome/quinol oxidases, subunit
1 [Energy production and conversion].
Length = 566
Score = 617 bits (1594), Expect = 0.0
Identities = 287/543 (52%), Positives = 363/543 (66%), Gaps = 9/543 (1%)
Query: 1 MLFRGFTDAVMMRLQQAISFGSSFGYLPPEHYNQIFTAHGVIMIFFVAMPLVTGIINFIV 60
L G A++MRL+ A GS F L P+ YNQI T HGVIMIFF AMP + G N++V
Sbjct: 30 FLLVGGALALLMRLELATPSGSQF--LDPQLYNQILTLHGVIMIFFFAMPAIGGFANYLV 87
Query: 61 PLQIGARDVAFPFLNNLSFWMTSGGAILVMISLFI-GEFASTGWLGYPPLSGIAQSPGVG 119
PL IGARDVAFP LN +SFW+ GAIL++ S F+ G A TGW YPPLS I G G
Sbjct: 88 PLMIGARDVAFPRLNAISFWLLVVGAILLVTSFFVPGGAADTGWTAYPPLSAI-SYSGPG 146
Query: 120 VDYYIWSLQIAGIGTLLSGINMIATIIKMRAPGMKLMNMPIFTWTALCTNILIVAAFPVL 179
VD +I L + GIG+LL IN I TI+ MRAPGM +M MP+FTW+ L T ILI+ AFPVL
Sbjct: 147 VDLFILGLHLLGIGSLLGAINFIVTILNMRAPGMTMMKMPLFTWSILITAILILLAFPVL 206
Query: 180 TSVLFLSTLDRYIGTHFFTNDLGGNIMMYVNLIWIWGHPEVYILVLPVFGIFSEVVSTFS 239
+ L + LDR GT FFT GG+ ++Y +L W +GHPEVYIL+LP FGI SE++ TF+
Sbjct: 207 AAALTMLLLDRNFGTSFFTPAGGGDPLLYQHLFWFFGHPEVYILILPAFGIVSEIIPTFA 266
Query: 240 SKRLFGYSSMVYATVVITLLSYIVWLHHFFTMGSGANVNAFFGITTMIISIPTGAKIFNW 299
K LFGY+SMVYA V I +LS+IVW HH FT G A++ AFF ITTMII+IPTG KIFNW
Sbjct: 267 RKPLFGYTSMVYAFVAIGILSFIVWAHHMFTTGLPADLRAFFSITTMIIAIPTGIKIFNW 326
Query: 300 LFTMYRGRIRFEVPILWTIGFMITFVIGGMAGVILAVPAANFLLHNSLFLVAHFHNVIIG 359
L T++ GRIRF+ P+L+ IGF++TFVIGG+ GV+LA +F++HN+ F+V HFH V+ G
Sbjct: 327 LATLWGGRIRFKTPMLFAIGFIVTFVIGGVTGVLLASIPLDFVVHNTYFVVGHFHYVLGG 386
Query: 360 GVLFGLMSGINYWFPKAFGYKLEPFWGKCSFWFWLIGFYVAFMPLYILGFMGVTRRMSHF 419
GV+FGL +GI YWFPK G L GK FW W IGF + F P+++LG MG+ RR + +
Sbjct: 387 GVVFGLFAGIYYWFPKMTGRMLNERLGKLHFWLWFIGFNLTFFPMHVLGLMGMPRRYATY 446
Query: 420 EDI-SLQIWFQIAAFGTLLIAMGILSFIIQLIVSYRKRHTLIDITGDPWNGRTLEWSTSS 478
+ IA G ++ +G+L F++ L+VS RK D TGDPW RTLEW+TSS
Sbjct: 447 PGVPGFTPLNVIATVGAFILGLGVLLFLLNLVVSLRKG--KRDATGDPWGARTLEWATSS 504
Query: 479 PPPVYNFAFIPL-IHQSDSWWYMKKNNFKFPKDKFQDILMPKNTNIGILISIFSLIMGFA 537
PPP YNFA +P + SD+ + K DI MP NT +IS FSL GF
Sbjct: 505 PPPFYNFAELPYKVRASDAVYDNKSPGLYERYPSG-DIHMPYNTGEPFMISKFSLFFGFG 563
Query: 538 LVW 540
L+W
Sbjct: 564 LIW 566
>gnl|CDD|131928 TIGR02882, QoxB, cytochrome aa3 quinol oxidase, subunit I. This
family (QoxB) encodes subunit I of the aa3-type quinone
oxidase, one of several bacterial terminal oxidases.
This complex couples oxidation of reduced quinones with
the reduction of molecular oxygen to water and the
pumping of protons to form a proton gradient utilized
for ATP production. aa3-type oxidases contain two heme a
cofactors as well as copper atoms in the active site
[Energy metabolism, Electron transport].
Length = 643
Score = 605 bits (1561), Expect = 0.0
Identities = 304/584 (52%), Positives = 402/584 (68%), Gaps = 8/584 (1%)
Query: 1 MLFRGFTDAVMMRLQQAISFGSSFGYLPPEHYNQIFTAHGVIMIFFVAMPLVTGIINFIV 60
MLFRG DA++MR Q + +L +HYN+IFT HGVIMI F+AMP + G++N +V
Sbjct: 64 MLFRGGIDALLMRAQLTVPDNK---FLDAQHYNEIFTTHGVIMIIFMAMPFIIGLMNIVV 120
Query: 61 PLQIGARDVAFPFLNNLSFWMTSGGAILVMISLFIGEFASTGWLGYPPLSGIAQSPGVGV 120
PLQIGARDVAFP LN LSFW+ GA+L IS IG GW Y PL+G SPGVGV
Sbjct: 121 PLQIGARDVAFPVLNALSFWLFFAGAMLFNISFVIGGSPDAGWTNYAPLAGPEFSPGVGV 180
Query: 121 DYYIWSLQIAGIGTLLSGINMIATIIKMRAPGMKLMNMPIFTWTALCTNILIVAAFPVLT 180
+YY+ +LQI+GIGTL++GIN TI+KMRAPGMKLM MP+FTWT L T ++I+ AFPVLT
Sbjct: 181 NYYLIALQISGIGTLMTGINFFVTILKMRAPGMKLMQMPMFTWTTLITTLIIIFAFPVLT 240
Query: 181 SVLFLSTLDRYIGTHFFTNDLGGNIMMYVNLIWIWGHPEVYILVLPVFGIFSEVVSTFSS 240
L L T DR T FFT GG M++ NL WIWGHPEVYI++LP FGI+SE++STF+
Sbjct: 241 VALALMTTDRIFDTAFFTVAHGGMPMLWANLFWIWGHPEVYIVILPAFGIYSEIISTFAQ 300
Query: 241 KRLFGYSSMVYATVVITLLSYIVWLHHFFTMGSGANVNAFFGITTMIISIPTGAKIFNWL 300
KRLFGY SMV++TV I LS++VW+HHFFTMG+GA +N+FF ITTM I+IPTG KIFNWL
Sbjct: 301 KRLFGYKSMVWSTVGIAFLSFLVWVHHFFTMGNGALINSFFSITTMAIAIPTGVKIFNWL 360
Query: 301 FTMYRGRIRFEVPILWTIGFMITFVIGGMAGVILAVPAANFLLHNSLFLVAHFHNVIIGG 360
T+Y+G+IRF P+L+++ F+ F+IGG+ GV+LA+ +A++ HN+ FLVAHFH V+I G
Sbjct: 361 LTLYKGKIRFTTPMLFSLAFIPNFLIGGVTGVMLAMASADYQYHNTYFLVAHFHYVLITG 420
Query: 361 VLFGLMSGINYWFPKAFGYKLEPFWGKCSFWFWLIGFYVAFMPLYILGFMGVTRRM-SHF 419
V+F ++G+ YW+PK FGYKL GK FWF++IGF V F P+YILG G+ RRM ++
Sbjct: 421 VVFACLAGLIYWYPKMFGYKLNERLGKWCFWFFMIGFNVCFFPMYILGLDGMPRRMYTYS 480
Query: 420 EDISLQIWFQIAAFGTLLIAMGILSFIIQLIVSYRKRHTLIDITGDPWNGRTLEWSTSSP 479
I+ G LL+A+G + + + Y R + + TGDPWNGRTLEW+T+SP
Sbjct: 481 PSDGWFPLNLISTIGALLMAIGFIFLVYNIY--YSHRKSPREATGDPWNGRTLEWATASP 538
Query: 480 PPVYNFAFIPLIHQSDSWWYMKKNNFKFPKDK--FQDILMPKNTNIGILISIFSLIMGFA 537
PP YNFA P ++ D++W MKK+ ++ D ++DI MP N+ +G I IF I GF
Sbjct: 539 PPKYNFAVTPDVNDYDAFWDMKKHGYRHYLDNENYKDIHMPNNSGVGFWIGIFFFIGGFF 598
Query: 538 LVWHMWLLTIISFIITLIIVIYNTFNYKRNYYISSEEITCIEKK 581
LV+ I+ +IY +F Y+I + EI E +
Sbjct: 599 LVFETVAPAIVGAFGIFGTLIYRSFEIDDGYHIPAAEIAETEAR 642
>gnl|CDD|213748 TIGR02891, CtaD_CoxA, cytochrome c oxidase, subunit I. This large
family represents subunit I's (CtaD, CoxA, CaaA) of
cytochrome c oxidases of bacterial origin. Cytochrome c
oxidase is the component of the respiratory chain that
catalyzes the reduction of oxygen to water. Subunits
I-III form the functional core of the enzyme complex.
Subunit I is the catalytic subunit of the enzyme.
Electrons originating in cytochrome c are transferred
via the copper A center of subunit II and heme a of
subunit I to the bimetallic center formed by heme a3 and
copper B. This cytochrome c oxidase shows proton pump
activity across the membrane in addition to the electron
transfer. In the bacilli an apparent split (paralogism)
has created a sister clade (TIGR02882) encoding subunits
(QoxA) of the aa3-type quinone oxidase complex which
reacts directly with quinones, bypassing the interaction
with soluble cytochrome c. This model attempts to
exclude these sequences, placing them between the
trusted and noise cutoffs. These families, as well as
archaeal and eukaryotic cytochrome c subunit I's are
included within the superfamily model, pfam00115 [Energy
metabolism, Electron transport].
Length = 499
Score = 502 bits (1296), Expect = e-174
Identities = 224/478 (46%), Positives = 307/478 (64%), Gaps = 7/478 (1%)
Query: 9 AVMMRLQQAISFGSSFGYLPPEHYNQIFTAHGVIMIFFVAMPLVTGIINFIVPLQIGARD 68
A++MR Q A G++F + E YNQ+FT HG IMIF A+P++ G N+++PL IGARD
Sbjct: 28 ALLMRAQLATP-GNTF--MDAETYNQLFTMHGTIMIFLFAIPILAGFGNYLLPLMIGARD 84
Query: 69 VAFPFLNNLSFWMTSGGAILVMISLFIGEFASTGWLGYPPLSGIAQSPGVGVDYYIWSLQ 128
+AFP LN S+W+ G +L++ S F G TGW YPPLS + SPGVGVD ++ L
Sbjct: 85 MAFPRLNAFSYWLYLFGGLLLLASFFTGGAPDTGWTMYPPLSSTSGSPGVGVDLWLLGLH 144
Query: 129 IAGIGTLLSGINMIATIIKMRAPGMKLMNMPIFTWTALCTNILIVAAFPVLTSVLFLSTL 188
+ GI ++L +N I TI+ MRAPGM LM MP+F W L T+ILI+ AFPVL + L L L
Sbjct: 145 LLGISSILGAVNFIVTILNMRAPGMTLMRMPLFVWGILVTSILILLAFPVLIAALILLLL 204
Query: 189 DRYIGTHFFTNDLGGNIMMYVNLIWIWGHPEVYILVLPVFGIFSEVVSTFSSKRLFGYSS 248
DR GTHFF GG+ +++ +L W +GHPEVYI+ LP FGI SE++ TF+ K +FGY +
Sbjct: 205 DRLFGTHFFDPARGGDPLLWQHLFWFFGHPEVYIIFLPAFGIISEILPTFARKPIFGYRA 264
Query: 249 MVYATVVITLLSYIVWLHHFFTMGSGANVNAFFGITTMIISIPTGAKIFNWLFTMYRGRI 308
MVYATV I LS+ VW HH FT G AFF TM+I++PTG K+FNW+ T++ G I
Sbjct: 265 MVYATVAIGFLSFGVWAHHMFTTGMPPLALAFFSAATMLIAVPTGVKVFNWIATLWGGSI 324
Query: 309 RFEVPILWTIGFMITFVIGGMAGVILAVPAANFLLHNSLFLVAHFHNVIIGGVLFGLMSG 368
RF P+L+ +GF+ FVIGG+ GV+LA ++ LH++ F+VAHFH V++GG +F + +
Sbjct: 325 RFTTPMLFALGFIFLFVIGGLTGVMLASVPLDWQLHDTYFVVAHFHYVLVGGSVFAIFAA 384
Query: 369 INYWFPKAFGYKLEPFWGKCSFWFWLIGFYVAFMPLYILGFMGVTRRMSHF-EDISLQIW 427
I YWFPK G G+ FW +GF + F P+++LG +G+ RR + +
Sbjct: 385 IYYWFPKVTGRMYNERLGRWHFWLTFVGFNLTFFPMHLLGLLGMPRRYYTYPPQMGFATL 444
Query: 428 FQIAAFGTLLIAMGILSFIIQLIVSYRKRHTLIDITGDPWNGRTLEWSTSSPPPVYNF 485
I+ G ++A G L F+ LI S RK +PW TLEW+TSSPPP +NF
Sbjct: 445 NLISTIGAFILAAGFLVFLWNLIWSLRKGP---KAGANPWGATTLEWTTSSPPPAHNF 499
>gnl|CDD|238461 cd00919, Heme_Cu_Oxidase_I, Heme-copper oxidase subunit I.
Heme-copper oxidases are transmembrane protein complexes
in the respiratory chains of prokaryotes and
mitochondria which catalyze the reduction of O2 and
simultaneously pump protons across the membrane. The
superfamily is diverse in terms of electron donors,
subunit composition, and heme types. The number of
subunits varies from three to five in bacteria and up to
13 in mammalian mitochondria. It has been proposed that
Archaea acquired heme-copper oxidases through gene
transfer from Gram-positive bacteria. Membership in the
superfamily is defined by subunit I, which contains a
heme-copper binuclear center (the active site where O2
is reduced to water) formed by a high-spin heme and a
copper ion. It also contains a low-spin heme, believed
to participate in the transfer of electrons to the
binuclear center. Only subunit I is common to the
entire superfamily. For every reduction of an O2
molecule, eight protons are taken from the inside
aqueous compartment and four electrons are taken from
the electron donor on the opposite side of the membrane.
The four electrons and four of the protons are used in
the reduction of O2; the four remaining protons are
pumped across the membrane. This charge separation of
four charges contributes to the electrochemical gradient
used for ATP synthesis. Two proton channels, the
D-pathway and K-pathway, leading to the binuclear center
have been identified in subunit I of cytochrome c
oxidase (CcO) and ubiquinol oxidase. A well-defined
pathway for the transfer of pumped protons beyond the
binuclear center has not been identified. Electron
transfer occurs in two segments: from the electron
donor to the low-spin heme, and from the low-spin heme
to the binuclear center. The first segment can be a
multi-step process and varies among the different
families, while the second segment, a direct transfer,
is consistent throughout the superfamily.
Length = 463
Score = 487 bits (1255), Expect = e-168
Identities = 213/453 (47%), Positives = 295/453 (65%), Gaps = 4/453 (0%)
Query: 1 MLFRGFTDAVMMRLQQAISFGSSFGYLPPEHYNQIFTAHGVIMIFFVAMPLVTGIINFIV 60
L G A+++RL+ A +L P+ YNQ+ TAHGVIMIFF MP + G ++
Sbjct: 15 ALLLGGLLALLIRLELATPGSL---FLDPQLYNQLVTAHGVIMIFFFVMPAIFGGFGNLL 71
Query: 61 PLQIGARDVAFPFLNNLSFWMTSGGAILVMISLFIGEFASTGWLGYPPLSGIAQSPGVGV 120
P IGARD+AFP LNNLSFW+ G +L++ S+ +G A TGW YPPLS ++ S GVGV
Sbjct: 72 PPLIGARDLAFPRLNNLSFWLFPPGLLLLLSSVLVGGGAGTGWTFYPPLSTLSYSSGVGV 131
Query: 121 DYYIWSLQIAGIGTLLSGINMIATIIKMRAPGMKLMNMPIFTWTALCTNILIVAAFPVLT 180
D I L +AG+ ++L IN I TI+ MRAPGM L MP+F W+ L T IL++ A PVL
Sbjct: 132 DLAILGLHLAGVSSILGAINFITTILNMRAPGMTLDKMPLFVWSVLVTAILLLLALPVLA 191
Query: 181 SVLFLSTLDRYIGTHFFTNDLGGNIMMYVNLIWIWGHPEVYILVLPVFGIFSEVVSTFSS 240
+ L + LDR GT FF GG+ ++Y +L W +GHPEVYIL+LP FG SE++ TFS
Sbjct: 192 AALVMLLLDRNFGTSFFDPAGGGDPVLYQHLFWFFGHPEVYILILPAFGAISEIIPTFSG 251
Query: 241 KRLFGYSSMVYATVVITLLSYIVWLHHFFTMGSGANVNAFFGITTMIISIPTGAKIFNWL 300
K LFGY MVYA + I LS++VW HH FT+G + A+F TMII++PTG K+FNWL
Sbjct: 252 KPLFGYKLMVYAFLAIGFLSFLVWAHHMFTVGLPVDTRAYFTAATMIIAVPTGIKVFNWL 311
Query: 301 FTMYRGRIRFEVPILWTIGFMITFVIGGMAGVILAVPAANFLLHNSLFLVAHFHNVIIGG 360
T++ GRIRF+ P+L+ +GF+ F IGG+ GV+LA + +LH++ ++VAHFH V+ GG
Sbjct: 312 ATLWGGRIRFDPPMLFALGFLFLFTIGGLTGVVLANVPLDIVLHDTYYVVAHFHYVLSGG 371
Query: 361 VLFGLMSGINYWFPKAFGYKLEPFWGKCSFWFWLIGFYVAFMPLYILGFMGVTRRMSHFE 420
V+F + +G+ YWFPK G L GK FW W IGF + F P++ LG +G+ RR + +
Sbjct: 372 VVFAIFAGLYYWFPKMTGRMLSEKLGKIHFWLWFIGFNLTFFPMHFLGLLGMPRRYADYP 431
Query: 421 DISLQIWFQIAAFGTLLIAMGILSFIIQLIVSY 453
D W I++ G ++ +G+L F+ L +S
Sbjct: 432 D-GFAPWNFISSVGAFILGLGLLLFLGNLFLSL 463
>gnl|CDD|238833 cd01663, Cyt_c_Oxidase_I, Cytochrome C oxidase subunit I.
Cytochrome c oxidase (CcO), the terminal oxidase in the
respiratory chains of eukaryotes and most bacteria, is a
multi-chain transmembrane protein located in the inner
membrane of mitochondria and the cell membrane of
prokaryotes. It catalyzes the reduction of O2 and
simultaneously pumps protons across the membrane. The
number of subunits varies from three to five in bacteria
and up to 13 in mammalian mitochondria. Only subunits I
and II are essential for function, but subunit III,
which is also conserved, may play a role in assembly or
oxygen delivery to the active site. Subunits I, II, and
III of mammalian CcO are encoded within the
mitochondrial genome and the remaining 10 subunits are
encoded within the nuclear genome. Subunit I contains a
heme-copper binuclear center (the active site where O2
is reduced to water) formed by a high-spin heme (heme
a3) and a copper ion (CuB). It also contains a low-spin
heme (heme a), believed to participate in the transfer
of electrons to the binuclear center. For every
reduction of an O2 molecule, eight protons are taken
from the inside aqueous compartment and four electrons
are taken from cytochrome c on the opposite side of the
membrane. The four electrons and four of the protons
are used in the reduction of O2; the four remaining
protons are pumped across the membrane. This charge
separation of four charges contributes to the
electrochemical gradient used for ATP synthesis. Two
proton channels, the D-pathway and K-pathway, leading to
the binuclear center have been identified in subunit I.
A well-defined pathway for the transfer of pumped
protons beyond the binuclear center has not been
identified. Electrons are transferred from cytochrome c
(the electron donor) to heme a via the CuA binuclear
site in subunit II, and directly from heme a to the
binuclear center.
Length = 488
Score = 422 bits (1088), Expect = e-143
Identities = 204/477 (42%), Positives = 290/477 (60%), Gaps = 8/477 (1%)
Query: 1 MLFRGFTDAVMMRLQQAISFGSSFGYLPPEHYNQIFTAHGVIMIFFVAMP-LVTGIINFI 59
G + ++++RL+ + GS G + YN I TAH +IMIFF+ MP L+ G N++
Sbjct: 17 SGLVGTSLSLLIRLELS-QPGSQLG--NDQLYNVIVTAHALIMIFFMVMPALIGGFGNWL 73
Query: 60 VPLQIGARDVAFPFLNNLSFWMTSGGAILVMISLFIGEFASTGWLGYPPLSGIAQSPGVG 119
VPL IGA D+AFP LNNLSFW+ +L+++S + A TGW YPPLS I G
Sbjct: 74 VPLMIGAPDMAFPRLNNLSFWLLPPSLLLLLLSALVEGGAGTGWTVYPPLSSILAHSGPS 133
Query: 120 VDYYIWSLQIAGIGTLLSGINMIATIIKMRAPGMKLMNMPIFTWTALCTNILIVAAFPVL 179
VD I+SL +AGI ++L IN I TI MRAPGM L MP+F W+ L T L++ + PVL
Sbjct: 134 VDLAIFSLHLAGISSILGAINFITTIFNMRAPGMTLEKMPLFVWSVLITAFLLLLSLPVL 193
Query: 180 TSVLFLSTLDRYIGTHFFTNDLGGNIMMYVNLIWIWGHPEVYILVLPVFGIFSEVVSTFS 239
+ + DR T FF GG+ ++Y +L W +GHPEVYIL+LP FGI S ++STFS
Sbjct: 194 AGAITMLLTDRNFNTSFFDPAGGGDPILYQHLFWFFGHPEVYILILPGFGIISHIISTFS 253
Query: 240 SKR-LFGYSSMVYATVVITLLSYIVWLHHFFTMGSGANVNAFFGITTMIISIPTGAKIFN 298
K+ +FGY MVYA + I +L +IVW HH FT+G + A+F TMII++PTG K+F+
Sbjct: 254 GKKPVFGYLGMVYAMLSIGILGFIVWAHHMFTVGLDVDTRAYFTAATMIIAVPTGIKVFS 313
Query: 299 WLFTMYRGRIRFEVPILWTIGFMITFVIGGMAGVILAVPAANFLLHNSLFLVAHFHNVII 358
WL TM+ G I+FE P+LW +GF+ F IGG+ GV+LA + + LH++ ++VAHFH V+
Sbjct: 314 WLATMWGGSIKFETPMLWALGFIFLFTIGGLTGVVLANSSLDIALHDTYYVVAHFHYVLS 373
Query: 359 GGVLFGLMSGINYWFPKAFGYKLEPFWGKCSFWFWLIGFYVAFMPLYILGFMGVTRRMSH 418
G +F + +G YWFPK G GK FW IG + F P + LG G+ RR
Sbjct: 374 MGAVFAIFAGFYYWFPKITGLSYNETLGKIHFWLMFIGVNLTFFPQHFLGLAGMPRRYPD 433
Query: 419 FEDISLQIWFQIAAFGTLLIAMGILSFIIQLIVSYRKRHTLIDITGDPWNGRTLEWS 475
+ D + W I++ G+L+ + +L F+ + S+ +I G+ +LEW+
Sbjct: 434 YPD-AYAGWNMISSIGSLISFVSVLLFLFIVWESFVSGRKVIFNVGEGST--SLEWT 487
>gnl|CDD|215728 pfam00115, COX1, Cytochrome C and Quinol oxidase polypeptide I.
Length = 441
Score = 388 bits (1000), Expect = e-130
Identities = 204/440 (46%), Positives = 273/440 (62%), Gaps = 15/440 (3%)
Query: 1 MLFRGFTDAVMMRLQQAISFGSSFGYLPPEHYNQIFTAHGVIMIFFVAMPLVTGIINFIV 60
G +++RLQ A S P YNQ+ T HG +MIF+ AMP + G+ N++V
Sbjct: 15 FFLIGGILGLLIRLQLAFPDFLS----PDATYNQLRTLHGNLMIFWWAMPALIGLGNYLV 70
Query: 61 PLQIGARDVAFPFLNNLSFWMTSGGAILVMISLFIGEFASTGWLGYPPLSGIAQSPGVGV 120
PL +GARD+AFP LN LSFW+ G +L ++SL +G A GW YPPLS + SP V
Sbjct: 71 PLMLGARDLAFPRLNALSFWLLVVGGLLALVSLLLGGGAGRGWTEYPPLSSTSSSP---V 127
Query: 121 DYYIWSLQIAGIGTLLSGINMIATIIKMRAPGMKLMNMPIFTWTALCTNILIVAAFPVLT 180
D +I L + GIG+LL IN I TI+K RAPGM L MP+F W+ L T ILI+ AFPVL
Sbjct: 128 DLWILGLLLVGIGSLLGAINFIVTILKRRAPGMTLSRMPLFVWSLLATAILILFAFPVLA 187
Query: 181 SVLFLSTLDRYIGTHFFTNDLGGNIMMYVNLIWIWGHPEVYILVLPVFGIFSEVVSTFSS 240
L + LDR GT FF + ++Y +L W +GHPEVYIL+LP FGI S ++ FS
Sbjct: 188 VALLMLLLDRNFGTSFF------DPLLYQHLFWFFGHPEVYILILPAFGIVSYILPKFSG 241
Query: 241 KRLFGYSSMVYATVVITLLSYIVWLHHFFTMGSGANVNAFFGITTMIISIPTGAKIFNWL 300
K LFGY MV A I LLS++VW HH FT G AFF + +M+I+IPTG K+FNWL
Sbjct: 242 KPLFGYKWMVLAFWAIALLSFLVWGHHMFTSGLPVWWRAFFSVFSMLIAIPTGLKVFNWL 301
Query: 301 FTMYRGRIRFEVPILWTIGFMITFVIGGMAGVILAVPAANFLLHNSLFLVAHFHNVIIGG 360
T++ GRIRF P+L+ +GF++ F IGG+ GV+LA+P ++ LH++ F+VAHFH V+ GG
Sbjct: 302 ATLWGGRIRFSPPMLFALGFIVLFTIGGLTGVLLALPPVDYYLHDTYFVVAHFHYVLYGG 361
Query: 361 VLFGLMSGINYWFPKAFGYKLEPFWGKCSFWFWLIGFYVAFMPLYILGFMGVTRRMSHFE 420
+F L +GI YWFPK G GK FW IGF + F PL+I G +G+ RR+ +
Sbjct: 362 AVFALFAGIYYWFPKLTGRMYNERLGKLHFWLLFIGFNLTFFPLHIAGLLGMPRRVPDYP 421
Query: 421 DISLQI--WFQIAAFGTLLI 438
+ + + G L+
Sbjct: 422 ASVPALEPYNLLRTIGGFLM 441
Score = 30.3 bits (69), Expect = 3.0
Identities = 34/150 (22%), Positives = 64/150 (42%), Gaps = 7/150 (4%)
Query: 314 ILWTIGFMITFVIGGMAGVILAV--PAANFLLHNSLF---LVAHFHNVIIGGVLFGLMSG 368
+L+ + ++ F+IGG+ G+++ + +FL ++ + H + +I + L+
Sbjct: 6 LLYLVTALVFFLIGGILGLLIRLQLAFPDFLSPDATYNQLRTLHGNLMIFWWAMPALIGL 65
Query: 369 INYWFPKAFGYKL--EPFWGKCSFWFWLIGFYVAFMPLYILGFMGVTRRMSHFEDISLQI 426
NY P G + P SFW ++G +A + L + G G +
Sbjct: 66 GNYLVPLMLGARDLAFPRLNALSFWLLVVGGLLALVSLLLGGGAGRGWTEYPPLSSTSSS 125
Query: 427 WFQIAAFGTLLIAMGILSFIIQLIVSYRKR 456
+ G LL+ +G L I IV+ KR
Sbjct: 126 PVDLWILGLLLVGIGSLLGAINFIVTILKR 155
>gnl|CDD|177235 MTH00184, COX1, cytochrome c oxidase subunit I; Provisional.
Length = 519
Score = 374 bits (962), Expect = e-124
Identities = 195/464 (42%), Positives = 289/464 (62%), Gaps = 3/464 (0%)
Query: 32 YNQIFTAHGVIMIFFVAMP-LVTGIINFIVPLQIGARDVAFPFLNNLSFWMTSGGAILVM 90
YN I TAH +MIFF+ MP ++ G N+ VPL IGA D+AFP LNN+SFW+ L++
Sbjct: 56 YNVIVTAHAFVMIFFLVMPVMIGGFGNWFVPLYIGAPDMAFPRLNNISFWLLPPALTLLL 115
Query: 91 ISLFIGEFASTGWLGYPPLSGIAQSPGVGVDYYIWSLQIAGIGTLLSGINMIATIIKMRA 150
S F+ + A TGW YPPLS I G VD I+SL +AGI ++L +N I TI MRA
Sbjct: 116 GSAFVEQGAGTGWTVYPPLSSIQAHSGGSVDMAIFSLHLAGISSILGAMNFITTIFNMRA 175
Query: 151 PGMKLMNMPIFTWTALCTNILIVAAFPVLTSVLFLSTLDRYIGTHFFTNDLGGNIMMYVN 210
PG+ + MP+F W+ L T L++ + PVL + + DR T FF GG+ ++Y +
Sbjct: 176 PGITMDRMPLFVWSILVTTFLLLLSLPVLAGAITMLLTDRNFNTTFFDPAGGGDPILYQH 235
Query: 211 LIWIWGHPEVYILVLPVFGIFSEVVSTFSSKR-LFGYSSMVYATVVITLLSYIVWLHHFF 269
L W +GHPEVYIL+LP FGI S+++ TF++K+ +FGY MVYA V I +L +IVW HH F
Sbjct: 236 LFWFFGHPEVYILILPGFGIISQIIPTFAAKKQIFGYLGMVYAMVSIGILGFIVWAHHMF 295
Query: 270 TMGSGANVNAFFGITTMIISIPTGAKIFNWLFTMYRGRIRFEVPILWTIGFMITFVIGGM 329
T+G + A+F TMII++PTG KIF+W+ T++ G +R + P+LW IGF+ F +GG+
Sbjct: 296 TVGMDVDTRAYFTAATMIIAVPTGIKIFSWIATIFGGSLRLDTPMLWAIGFVFLFTMGGL 355
Query: 330 AGVILAVPAANFLLHNSLFLVAHFHNVIIGGVLFGLMSGINYWFPKAFGYKLEPFWGKCS 389
G++LA + + +LH++ ++VAHFH V+ G +F + G YWF K GY +GK
Sbjct: 356 TGIVLANSSLDVVLHDTYYVVAHFHYVLSMGAVFAIFGGFYYWFGKITGYCYNEVYGKIH 415
Query: 390 FWFWLIGFYVAFMPLYILGFMGVTRRMSHFEDISLQIWFQIAAFGTLLIAMGILSFIIQL 449
FW IG + F P + LG G+ RR S F D S W QI++ G+++ +G++ FI +
Sbjct: 416 FWLMFIGVNLTFFPQHFLGLAGLPRRYSDFHD-SFAGWNQISSLGSVISIVGVVWFIYIV 474
Query: 450 IVSYRKRHTLIDITGDPWNGRTLEWSTSSPPPVYNFAFIPLIHQ 493
+Y + + D + +LEW+ +SPP + + +P +++
Sbjct: 475 YDAYVREIKFVGWVEDSGHYPSLEWAQTSPPAHHTYNELPYVYK 518
>gnl|CDD|214451 MTH00182, COX1, cytochrome c oxidase subunit I; Provisional.
Length = 525
Score = 369 bits (949), Expect = e-122
Identities = 196/470 (41%), Positives = 287/470 (61%), Gaps = 8/470 (1%)
Query: 32 YNQIFTAHGVIMIFFVAMP-LVTGIINFIVPLQIGARDVAFPFLNNLSFWMTSGGAILVM 90
YN I TAH IMIFF+ MP ++ G N++VPL IGA D+AFP LNN+SFW+ IL++
Sbjct: 56 YNVIVTAHAFIMIFFLVMPVMIGGFGNWLVPLYIGAPDMAFPRLNNISFWLLPPALILLL 115
Query: 91 ISLFIGEFASTGWLGYPPLSGIAQSPGVGVDYYIWSLQIAGIGTLLSGINMIATIIKMRA 150
S F+ + A TGW YPPLS I G VD I+SL +AG+ ++L IN I TI MRA
Sbjct: 116 GSAFVEQGAGTGWTVYPPLSSIQAHSGGAVDMAIFSLHLAGVSSILGAINFITTIFNMRA 175
Query: 151 PGMKLMNMPIFTWTALCTNILIVAAFPVLTSVLFLSTLDRYIGTHFFTNDLGGNIMMYVN 210
PG+ +P+F W+ L T L++ + PVL + + DR T FF GG+ +++ +
Sbjct: 176 PGVTFNRLPLFVWSILITAFLLLLSLPVLAGAITMLLTDRNFNTTFFDPAGGGDPILFQH 235
Query: 211 LIWIWGHPEVYILVLPVFGIFSEVVSTFSSKR-LFGYSSMVYATVVITLLSYIVWLHHFF 269
L W +GHPEVYIL+LP FG+ S+++ TF +K+ +FGY MVYA + I +L +IVW HH F
Sbjct: 236 LFWFFGHPEVYILILPGFGMISQIIPTFVAKKQIFGYLGMVYAMLSIGILGFIVWAHHMF 295
Query: 270 TMGSGANVNAFFGITTMIISIPTGAKIFNWLFTMYRGRIRFEVPILWTIGFMITFVIGGM 329
T+G + A+F TMII++PTG K+F+WL T+Y G +R + P+LW +GF+ F +GG+
Sbjct: 296 TVGMDVDTRAYFTAATMIIAVPTGIKVFSWLATIYGGTLRLDTPMLWAMGFVFLFTLGGL 355
Query: 330 AGVILAVPAANFLLHNSLFLVAHFHNVIIGGVLFGLMSGINYWFPKAFGYKLEPFWGKCS 389
GV+LA + + +LH++ ++VAHFH V+ G +F + G YWF K GY +GK
Sbjct: 356 TGVVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIFGGFYYWFGKITGYCYNELYGKIH 415
Query: 390 FWFWLIGFYVAFMPLYILGFMGVTRRMSHFEDISLQIWFQIAAFGTLLIAMGILSF---I 446
FW IG + F P + LG G RR S F D + W +++ G+++ +G++ F I
Sbjct: 416 FWLMFIGVNLTFFPQHFLGLAGFPRRYSDFAD-AFAGWNLVSSLGSIISIVGVVWFIYII 474
Query: 447 IQLIVSYRKRHTLIDITGDPWNGRTLEWSTSSPPPVYNFAFIPLIHQSDS 496
V K + TG+ W +LEW SSPP + + +P +++S
Sbjct: 475 YDAYVREEKFIGWKEGTGESWA--SLEWVHSSPPLFHTYNELPFVYKSKL 522
>gnl|CDD|177260 MTH00223, COX1, cytochrome c oxidase subunit I; Provisional.
Length = 512
Score = 359 bits (924), Expect = e-118
Identities = 185/485 (38%), Positives = 288/485 (59%), Gaps = 11/485 (2%)
Query: 5 GFTDAVMMRLQQAISFGSSFGYLPPEH-YNQIFTAHGVIMIFFVAMP-LVTGIINFIVPL 62
G + ++++R + G L + YN I TAH +MIFF+ MP ++ G N++VPL
Sbjct: 27 GTSLSLLIRAE----LGQPGALLGDDQLYNVIVTAHAFVMIFFLVMPMMIGGFGNWLVPL 82
Query: 63 QIGARDVAFPFLNNLSFWMTSGGAILVMISLFIGEFASTGWLGYPPLSGIAQSPGVGVDY 122
+GA D+AFP LNN+SFW+ L++ S + TGW YPPLS G VD
Sbjct: 83 MLGAPDMAFPRLNNMSFWLLPPSLYLLLSSSAVESGVGTGWTVYPPLSSNLAHAGPSVDL 142
Query: 123 YIWSLQIAGIGTLLSGINMIATIIKMRAPGMKLMNMPIFTWTALCTNILIVAAFPVLTSV 182
I+SL +AG+ ++L IN I TII MR+PGM+L +P+F W+ T L++ + PVL
Sbjct: 143 AIFSLHLAGVSSILGAINFITTIINMRSPGMQLERLPLFVWSVKVTAFLLLLSLPVLAGA 202
Query: 183 LFLSTLDRYIGTHFFTNDLGGNIMMYVNLIWIWGHPEVYILVLPVFGIFSEVVSTFSSK- 241
+ + DR T FF GG+ ++Y +L W +GHPEVYIL+LP FG+ S +VS +SSK
Sbjct: 203 ITMLLTDRNFNTSFFDPAGGGDPILYQHLFWFFGHPEVYILILPGFGMISHIVSHYSSKK 262
Query: 242 RLFGYSSMVYATVVITLLSYIVWLHHFFTMGSGANVNAFFGITTMIISIPTGAKIFNWLF 301
+FG M+YA + I +L +IVW HH FT+G + A+F TMII++PTG K+F+WL
Sbjct: 263 EVFGTLGMIYAMLSIGVLGFIVWAHHMFTVGMDVDTRAYFTAATMIIAVPTGIKVFSWLA 322
Query: 302 TMYRGRIRFEVPILWTIGFMITFVIGGMAGVILAVPAANFLLHNSLFLVAHFHNVIIGGV 361
T+Y +I++E P+LW +GF+ F +GG+ G+IL+ + + +LH++ ++VAHFH V+ G
Sbjct: 323 TIYGSKIKYEAPMLWALGFIFLFTVGGLTGIILSNSSLDIMLHDTYYVVAHFHYVLSMGA 382
Query: 362 LFGLMSGINYWFPKAFGYKLEPFWGKCSFWFWLIGFYVAFMPLYILGFMGVTRRMSHFED 421
+F L +G N+WFP G L W K F+ +G + F P + LG G+ RR S + D
Sbjct: 383 VFALFAGFNHWFPLFTGVTLHRRWAKAHFFLMFLGVNLTFFPQHFLGLAGMPRRYSDYPD 442
Query: 422 ISLQIWFQIAAFGTLLIAMGILSFIIQLIVSYRKRHTLIDITGDPWNGRTLEWSTSSPPP 481
W Q+++FG+++ + +L F+ + ++ + +++ +LEW P
Sbjct: 443 -CYTKWNQVSSFGSMISFVSVLFFMFIVWEAFVSQRSVVWSGHLS---TSLEWDNLLPAD 498
Query: 482 VYNFA 486
+N +
Sbjct: 499 FHNNS 503
>gnl|CDD|177177 MTH00116, COX1, cytochrome c oxidase subunit I; Provisional.
Length = 515
Score = 358 bits (921), Expect = e-118
Identities = 179/464 (38%), Positives = 275/464 (59%), Gaps = 6/464 (1%)
Query: 32 YNQIFTAHGVIMIFFVAMP-LVTGIINFIVPLQIGARDVAFPFLNNLSFWMTSGGAILVM 90
YN I TAH +MIFF+ MP ++ G N++VPL IGA D+AFP +NN+SFW+ +L++
Sbjct: 54 YNVIVTAHAFVMIFFMVMPIMIGGFGNWLVPLMIGAPDMAFPRMNNMSFWLLPPSFLLLL 113
Query: 91 ISLFIGEFASTGWLGYPPLSGIAQSPGVGVDYYIWSLQIAGIGTLLSGINMIATIIKMRA 150
S + A TGW YPPL+G G VD I+SL +AG+ ++L IN I T I M+
Sbjct: 114 ASSTVEAGAGTGWTVYPPLAGNLAHAGASVDLAIFSLHLAGVSSILGAINFITTCINMKP 173
Query: 151 PGMKLMNMPIFTWTALCTNILIVAAFPVLTSVLFLSTLDRYIGTHFFTNDLGGNIMMYVN 210
P M P+F W+ L T +L++ + PVL + + + DR + T FF GG+ ++Y +
Sbjct: 174 PAMSQYQTPLFVWSVLITAVLLLLSLPVLAAGITMLLTDRNLNTTFFDPAGGGDPILYQH 233
Query: 211 LIWIWGHPEVYILVLPVFGIFSEVVSTFSSKR-LFGYSSMVYATVVITLLSYIVWLHHFF 269
L W +GHPEVYIL+LP FGI S +V+ ++ K+ FGY MV+A + I L +IVW HH F
Sbjct: 234 LFWFFGHPEVYILILPGFGIISHIVTYYAGKKEPFGYMGMVWAMLSIGFLGFIVWAHHMF 293
Query: 270 TMGSGANVNAFFGITTMIISIPTGAKIFNWLFTMYRGRIRFEVPILWTIGFMITFVIGGM 329
T+G + A+F TMII+IPTG K+F+WL T++ G I+++ P+LW +GF+ F IGG+
Sbjct: 294 TVGMDVDTRAYFTSATMIIAIPTGIKVFSWLATLHGGTIKWDPPMLWALGFIFLFTIGGL 353
Query: 330 AGVILAVPAANFLLHNSLFLVAHFHNVIIGGVLFGLMSGINYWFPKAFGYKLEPFWGKCS 389
G++LA + + +LH++ ++VAHFH V+ G +F +M+G +WFP GY L W K
Sbjct: 354 TGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAGFTHWFPLFTGYTLHQTWTKAQ 413
Query: 390 FWFWLIGFYVAFMPLYILGFMGVTRRMSHFEDISLQIWFQIAAFGTLLIAMGILSFIIQL 449
F G + F P + LG G+ RR S + D + +W I++ G+L+ ++ + +
Sbjct: 414 FGVMFTGVNLTFFPQHFLGLAGMPRRYSDYPD-AYTLWNTISSIGSLISMTAVIMLMFII 472
Query: 450 IVSYRKRHTLIDITGDPWNGRTLEWSTSSPPPVYNFAFIPLIHQ 493
++ + ++ N +EW PPP + F +
Sbjct: 473 WEAFSSKRKVLQPELTTTN---IEWIHGCPPPYHTFEEPAFVQV 513
>gnl|CDD|177222 MTH00167, COX1, cytochrome c oxidase subunit I; Provisional.
Length = 512
Score = 354 bits (911), Expect = e-116
Identities = 181/462 (39%), Positives = 280/462 (60%), Gaps = 6/462 (1%)
Query: 32 YNQIFTAHGVIMIFFVAMP-LVTGIINFIVPLQIGARDVAFPFLNNLSFWMTSGGAILVM 90
YN I TAH +MIFF+ MP ++ G N++VPL IGA D+AFP +NN+SFW+ +L++
Sbjct: 54 YNVIVTAHAFVMIFFMVMPIMIGGFGNWLVPLMIGAPDMAFPRMNNMSFWLLPPSLLLLL 113
Query: 91 ISLFIGEFASTGWLGYPPLSGIAQSPGVGVDYYIWSLQIAGIGTLLSGINMIATIIKMRA 150
S + A TGW YPPL+G G VD I+SL +AG+ ++L IN I TII M+
Sbjct: 114 ASSGVEAGAGTGWTVYPPLAGNLAHAGASVDLAIFSLHLAGVSSILGSINFITTIINMKP 173
Query: 151 PGMKLMNMPIFTWTALCTNILIVAAFPVLTSVLFLSTLDRYIGTHFFTNDLGGNIMMYVN 210
PG+ P+F W+ L T IL++ + PVL + + + DR + T FF GG+ ++Y +
Sbjct: 174 PGITQYQTPLFVWSILVTTILLLLSLPVLAAAITMLLTDRNLNTTFFDPAGGGDPILYQH 233
Query: 211 LIWIWGHPEVYILVLPVFGIFSEVVSTFSSK-RLFGYSSMVYATVVITLLSYIVWLHHFF 269
L W +GHPEVYIL+LP FG+ S +V +S K FGY MV+A + I LL +IVW HH F
Sbjct: 234 LFWFFGHPEVYILILPGFGMISHIVVYYSGKKEPFGYMGMVWAMMAIGLLGFIVWAHHMF 293
Query: 270 TMGSGANVNAFFGITTMIISIPTGAKIFNWLFTMYRGRIRFEVPILWTIGFMITFVIGGM 329
T+G + A+F TMII++PTG K+F+WL T++ G+I++E P+LW +GF+ F +GG+
Sbjct: 294 TVGMDVDTRAYFTSATMIIAVPTGIKVFSWLATLHGGKIKWETPMLWALGFIFLFTVGGL 353
Query: 330 AGVILAVPAANFLLHNSLFLVAHFHNVIIGGVLFGLMSGINYWFPKAFGYKLEPFWGKCS 389
G++LA + + +LH++ ++VAHFH V+ G +F +M+G +WFP G L W K
Sbjct: 354 TGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAGFTHWFPLFTGLTLNETWTKIH 413
Query: 390 FWFWLIGFYVAFMPLYILGFMGVTRRMSHFEDISLQIWFQIAAFGTLLIAMGILSFIIQL 449
F+ IG + F P + LG G+ RR S + D +W +++ G+L+ + ++ F+ +
Sbjct: 414 FFVMFIGVNLTFFPQHFLGLAGMPRRYSDYPDAYT-LWNVVSSIGSLISLVAVILFLFII 472
Query: 450 IVSYRKRHTLIDITGDPWNGRTLEWSTSSPPPVYNFAFIPLI 491
++ + L+ + +EW PPP + + P +
Sbjct: 473 WEAFSSKRKLLPVELT---STNVEWLHGCPPPHHTWEEPPFV 511
>gnl|CDD|214431 MTH00142, COX1, cytochrome c oxidase subunit I; Provisional.
Length = 511
Score = 353 bits (908), Expect = e-116
Identities = 178/462 (38%), Positives = 281/462 (60%), Gaps = 6/462 (1%)
Query: 32 YNQIFTAHGVIMIFFVAMP-LVTGIINFIVPLQIGARDVAFPFLNNLSFWMTSGGAILVM 90
YN I TAH +MIFF+ MP ++ G N++VPL +GA D+AFP +NN+SFW+ +L++
Sbjct: 52 YNVIVTAHAFVMIFFMVMPVMIGGFGNWLVPLMLGAPDMAFPRMNNMSFWLLPPALLLLL 111
Query: 91 ISLFIGEFASTGWLGYPPLSGIAQSPGVGVDYYIWSLQIAGIGTLLSGINMIATIIKMRA 150
S + A TGW YPPLS G VD I+SL +AG+ ++L IN I T+I MRA
Sbjct: 112 SSAAVESGAGTGWTVYPPLSSNLAHSGGSVDLAIFSLHLAGVSSILGAINFITTVINMRA 171
Query: 151 PGMKLMNMPIFTWTALCTNILIVAAFPVLTSVLFLSTLDRYIGTHFFTNDLGGNIMMYVN 210
GMK +P+F W+ T IL++ + PVL + + DR T FF GG+ ++Y +
Sbjct: 172 GGMKFERVPLFVWSVKITAILLLLSLPVLAGAITMLLTDRNFNTSFFDPAGGGDPILYQH 231
Query: 211 LIWIWGHPEVYILVLPVFGIFSEVVSTFSSKR-LFGYSSMVYATVVITLLSYIVWLHHFF 269
L W +GHPEVYIL+LP FG+ S +++ +S K+ +FG M+YA + I LL +IVW HH F
Sbjct: 232 LFWFFGHPEVYILILPGFGMISHIINHYSGKKEVFGTLGMIYAMLSIGLLGFIVWAHHMF 291
Query: 270 TMGSGANVNAFFGITTMIISIPTGAKIFNWLFTMYRGRIRFEVPILWTIGFMITFVIGGM 329
T+G + A+F TM+I++PTG K+F+WL T++ ++++E P+LW +GF+ F +GG+
Sbjct: 292 TVGMDVDTRAYFTAATMVIAVPTGIKVFSWLATLHGSKVKYEPPMLWALGFIFLFTVGGL 351
Query: 330 AGVILAVPAANFLLHNSLFLVAHFHNVIIGGVLFGLMSGINYWFPKAFGYKLEPFWGKCS 389
G++LA + + +LH++ ++VAHFH V+ G +F L +G +WFP G L P W K
Sbjct: 352 TGIVLANSSLDVVLHDTYYVVAHFHYVLSMGAVFALFAGFIHWFPLFTGLTLNPRWLKAH 411
Query: 390 FWFWLIGFYVAFMPLYILGFMGVTRRMSHFEDISLQIWFQIAAFGTLLIAMGILSFIIQL 449
F+ IG + F P + LG G+ RR S + D + W +++ G+++ + +L F+ +
Sbjct: 412 FYTMFIGVNLTFFPQHFLGLAGMPRRYSDYPD-AYTTWNVVSSLGSMISFIAVLMFVFIV 470
Query: 450 IVSYRKRHTLIDITGDPWNGRTLEWSTSSPPPVYNFAFIPLI 491
S+ + ++ +LEWS PP + + +P++
Sbjct: 471 WESFVSQRLVMWS---SHLSTSLEWSHRLPPDFHTYDELPIL 509
>gnl|CDD|177210 MTH00153, COX1, cytochrome c oxidase subunit I; Provisional.
Length = 511
Score = 345 bits (888), Expect = e-113
Identities = 187/462 (40%), Positives = 277/462 (59%), Gaps = 6/462 (1%)
Query: 32 YNQIFTAHGVIMIFFVAMPLVTG-IINFIVPLQIGARDVAFPFLNNLSFWMTSGGAILVM 90
YN I TAH IMIFF+ MP++ G N++VPL +GA D+AFP +NN+SFW+ L++
Sbjct: 52 YNVIVTAHAFIMIFFMVMPIMIGGFGNWLVPLMLGAPDMAFPRMNNMSFWLLPPSLTLLL 111
Query: 91 ISLFIGEFASTGWLGYPPLSGIAQSPGVGVDYYIWSLQIAGIGTLLSGINMIATIIKMRA 150
S + A TGW YPPLS G VD I+SL +AGI ++L IN I TII MR+
Sbjct: 112 SSSMVESGAGTGWTVYPPLSSNIAHSGASVDLAIFSLHLAGISSILGAINFITTIINMRS 171
Query: 151 PGMKLMNMPIFTWTALCTNILIVAAFPVLTSVLFLSTLDRYIGTHFFTNDLGGNIMMYVN 210
GM L MP+F W+ L T IL++ + PVL + + DR + T FF GG+ ++Y +
Sbjct: 172 KGMTLDRMPLFVWSVLITAILLLLSLPVLAGAITMLLTDRNLNTSFFDPAGGGDPILYQH 231
Query: 211 LIWIWGHPEVYILVLPVFGIFSEVVSTFSSKR-LFGYSSMVYATVVITLLSYIVWLHHFF 269
L W +GHPEVYIL+LP FG+ S ++S S K+ FG M+YA + I LL +IVW HH F
Sbjct: 232 LFWFFGHPEVYILILPGFGMISHIISQESGKKETFGTLGMIYAMLAIGLLGFIVWAHHMF 291
Query: 270 TMGSGANVNAFFGITTMIISIPTGAKIFNWLFTMYRGRIRFEVPILWTIGFMITFVIGGM 329
T+G + A+F TMII++PTG KIF+WL T++ +I + +LW +GF+ F IGG+
Sbjct: 292 TVGMDVDTRAYFTSATMIIAVPTGIKIFSWLATLHGSQINYSPSLLWALGFVFLFTIGGL 351
Query: 330 AGVILAVPAANFLLHNSLFLVAHFHNVIIGGVLFGLMSGINYWFPKAFGYKLEPFWGKCS 389
GV+LA + + +LH++ ++VAHFH V+ G +F +M G +WFP G + P W K
Sbjct: 352 TGVVLANSSIDIILHDTYYVVAHFHYVLSMGAVFAIMGGFIHWFPLFTGLTMNPKWLKIQ 411
Query: 390 FWFWLIGFYVAFMPLYILGFMGVTRRMSHFEDISLQIWFQIAAFGTLLIAMGILSFIIQL 449
F+ IG + F P + LG G+ RR S + D + W I++ G+ + + IL FI +
Sbjct: 412 FFIMFIGVNLTFFPQHFLGLAGMPRRYSDYPD-AYTSWNVISSIGSTISLISILFFIFII 470
Query: 450 IVSYRKRHTLIDITGDPWNGRTLEWSTSSPPPVYNFAFIPLI 491
S + ++ ++EW + PP ++++ +PL+
Sbjct: 471 WESMISKRPVLFSLNLS---SSIEWLQNLPPAEHSYSELPLL 509
>gnl|CDD|177112 MTH00037, COX1, cytochrome c oxidase subunit I; Provisional.
Length = 517
Score = 336 bits (864), Expect = e-109
Identities = 178/452 (39%), Positives = 274/452 (60%), Gaps = 6/452 (1%)
Query: 32 YNQIFTAHGVIMIFFVAMP-LVTGIINFIVPLQIGARDVAFPFLNNLSFWMTSGGAILVM 90
YN I TAH ++MIFF+ MP ++ G N+++PL IGA D+AFP +NN+SFW+ +L++
Sbjct: 54 YNVIVTAHALVMIFFMVMPIMIGGFGNWLIPLMIGAPDMAFPRMNNMSFWLIPPSFLLLL 113
Query: 91 ISLFIGEFASTGWLGYPPLSGIAQSPGVGVDYYIWSLQIAGIGTLLSGINMIATIIKMRA 150
S + A TGW YPPLS G VD I+SL +AG ++L+ IN I TII MR
Sbjct: 114 ASAGVESGAGTGWTIYPPLSSNIAHAGGSVDLAIFSLHLAGASSILASINFITTIINMRT 173
Query: 151 PGMKLMNMPIFTWTALCTNILIVAAFPVLTSVLFLSTLDRYIGTHFFTNDLGGNIMMYVN 210
PGM +P+F W+ T L++ + PVL + + DR I T FF GG+ +++ +
Sbjct: 174 PGMTFDRLPLFVWSVFITAFLLLLSLPVLAGAITMLLTDRNINTTFFDPAGGGDPILFQH 233
Query: 211 LIWIWGHPEVYILVLPVFGIFSEVVSTFSSKRL-FGYSSMVYATVVITLLSYIVWLHHFF 269
L W +GHPEVYIL+LP FG+ S V++ +S K+ FGY MVYA + I +L ++VW HH F
Sbjct: 234 LFWFFGHPEVYILILPGFGMISHVIAHYSGKQEPFGYLGMVYAMIAIGILGFLVWAHHMF 293
Query: 270 TMGSGANVNAFFGITTMIISIPTGAKIFNWLFTMYRGRIRFEVPILWTIGFMITFVIGGM 329
T+G + A+F TMII++PTG K+F+W+ T+ +R+E P+LW +GF+ F IGG+
Sbjct: 294 TVGMDVDTRAYFTAATMIIAVPTGIKVFSWMATLQGSNLRWETPLLWALGFVFLFTIGGL 353
Query: 330 AGVILAVPAANFLLHNSLFLVAHFHNVIIGGVLFGLMSGINYWFPKAFGYKLEPFWGKCS 389
G++LA + + +LH++ ++VAHFH V+ G +F + +G +WFP G L P W K
Sbjct: 354 TGIVLANSSIDVVLHDTYYVVAHFHYVLSMGAVFAIFAGFTHWFPLFSGVSLHPLWSKVH 413
Query: 390 FWFWLIGFYVAFMPLYILGFMGVTRRMSHFEDISLQIWFQIAAFGTLLIAMGILSFIIQL 449
F+ IG + F P + LG G+ RR S + D + +W +++ G+ + + L F+ +
Sbjct: 414 FFLMFIGVNLTFFPQHFLGLAGMPRRYSDYPD-AYTLWNTVSSIGSTISLVATLFFLFLI 472
Query: 450 IVSYRKRHTLIDITGDPWNGRTLEWSTSSPPP 481
++ + + ++ +LEW SS PP
Sbjct: 473 WEAFASQRE---VISPEFSSSSLEWQYSSFPP 501
>gnl|CDD|177234 MTH00183, COX1, cytochrome c oxidase subunit I; Provisional.
Length = 516
Score = 336 bits (863), Expect = e-109
Identities = 181/458 (39%), Positives = 279/458 (60%), Gaps = 10/458 (2%)
Query: 32 YNQIFTAHGVIMIFFVAMP-LVTGIINFIVPLQIGARDVAFPFLNNLSFWMTSGGAILVM 90
YN I TAH +MIFF+ MP ++ G N+++PL IGA D+AFP +NN+SFW+ +L++
Sbjct: 54 YNVIVTAHAFVMIFFMVMPIMIGGFGNWLIPLMIGAPDMAFPRMNNMSFWLLPPSFLLLL 113
Query: 91 ISLFIGEFASTGWLGYPPLSGIAQSPGVGVDYYIWSLQIAGIGTLLSGINMIATIIKMRA 150
S + A TGW YPPL+G G VD I+SL +AG+ ++L IN I TII M+
Sbjct: 114 ASSGVEAGAGTGWTVYPPLAGNLAHAGASVDLTIFSLHLAGVSSILGAINFITTIINMKP 173
Query: 151 PGMKLMNMPIFTWTALCTNILIVAAFPVLTSVLFLSTLDRYIGTHFFTNDLGGNIMMYVN 210
P + P+F W L T +L++ + PVL + + + DR + T FF GG+ ++Y +
Sbjct: 174 PAISQYQTPLFVWAVLITAVLLLLSLPVLAAGITMLLTDRNLNTTFFDPAGGGDPILYQH 233
Query: 211 LIWIWGHPEVYILVLPVFGIFSEVVSTFSSKRL-FGYSSMVYATVVITLLSYIVWLHHFF 269
L W +GHPEVYIL+LP FG+ S +V+ +S K+ FGY MV+A + I LL +IVW HH F
Sbjct: 234 LFWFFGHPEVYILILPGFGMISHIVAYYSGKKEPFGYMGMVWAMMAIGLLGFIVWAHHMF 293
Query: 270 TMGSGANVNAFFGITTMIISIPTGAKIFNWLFTMYRGRIRFEVPILWTIGFMITFVIGGM 329
T+G + A+F TMII+IPTG K+F+WL T++ G I++E P+LW +GF+ F +GG+
Sbjct: 294 TVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIKWETPLLWALGFIFLFTVGGL 353
Query: 330 AGVILAVPAANFLLHNSLFLVAHFHNVIIGGVLFGLMSGINYWFPKAFGYKLEPFWGKCS 389
G++LA + + +LH++ ++VAHFH V+ G +F +M+ +WFP GY L W K
Sbjct: 354 TGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAFVHWFPLFSGYTLHSTWTKIH 413
Query: 390 FWFWLIGFYVAFMPLYILGFMGVTRRMSHFEDISLQIWFQIAAFGTL--LIAMGILSFII 447
F +G + F P + LG G+ RR S + D + +W +++ G+L L+A+ + FI+
Sbjct: 414 FGVMFVGVNLTFFPQHFLGLAGMPRRYSDYPD-AYTLWNTVSSIGSLISLVAVIMFLFIL 472
Query: 448 QLIVSYRKRHTLIDITGDPWNGRTLEWSTSSPPPVYNF 485
+ ++ +++T +EW PPP + F
Sbjct: 473 WEAFAAKREVLSVELT-----STNVEWLHGCPPPYHTF 505
>gnl|CDD|177165 MTH00103, COX1, cytochrome c oxidase subunit I; Validated.
Length = 513
Score = 332 bits (853), Expect = e-107
Identities = 181/458 (39%), Positives = 275/458 (60%), Gaps = 10/458 (2%)
Query: 32 YNQIFTAHGVIMIFFVAMP-LVTGIINFIVPLQIGARDVAFPFLNNLSFWMTSGGAILVM 90
YN I TAH +MIFF+ MP ++ G N++VPL IGA D+AFP +NN+SFW+ +L++
Sbjct: 54 YNVIVTAHAFVMIFFMVMPIMIGGFGNWLVPLMIGAPDMAFPRMNNMSFWLLPPSFLLLL 113
Query: 91 ISLFIGEFASTGWLGYPPLSGIAQSPGVGVDYYIWSLQIAGIGTLLSGINMIATIIKMRA 150
S + A TGW YPPL+G G VD I+SL +AG+ ++L IN I TII M+
Sbjct: 114 ASSMVEAGAGTGWTVYPPLAGNLAHAGASVDLTIFSLHLAGVSSILGAINFITTIINMKP 173
Query: 151 PGMKLMNMPIFTWTALCTNILIVAAFPVLTSVLFLSTLDRYIGTHFFTNDLGGNIMMYVN 210
P M P+F W+ L T +L++ + PVL + + + DR + T FF GG+ ++Y +
Sbjct: 174 PAMSQYQTPLFVWSVLITAVLLLLSLPVLAAGITMLLTDRNLNTTFFDPAGGGDPILYQH 233
Query: 211 LIWIWGHPEVYILVLPVFGIFSEVVSTFSSKRL-FGYSSMVYATVVITLLSYIVWLHHFF 269
L W +GHPEVYIL+LP FG+ S +V+ +S K+ FGY MV+A + I L +IVW HH F
Sbjct: 234 LFWFFGHPEVYILILPGFGMISHIVTYYSGKKEPFGYMGMVWAMMSIGFLGFIVWAHHMF 293
Query: 270 TMGSGANVNAFFGITTMIISIPTGAKIFNWLFTMYRGRIRFEVPILWTIGFMITFVIGGM 329
T+G + A+F TMII+IPTG K+F+WL T++ G I++ +LW +GF+ F +GG+
Sbjct: 294 TVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGNIKWSPAMLWALGFIFLFTVGGL 353
Query: 330 AGVILAVPAANFLLHNSLFLVAHFHNVIIGGVLFGLMSGINYWFPKAFGYKLEPFWGKCS 389
G++LA + + +LH++ ++VAHFH V+ G +F +M G +WFP GY L W K
Sbjct: 354 TGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMGGFVHWFPLFSGYTLNDTWAKIH 413
Query: 390 FWFWLIGFYVAFMPLYILGFMGVTRRMSHFEDISLQIWFQIAAFGTL--LIAMGILSFII 447
F +G + F P + LG G+ RR S + D + W +++ G+ L A+ ++ F+I
Sbjct: 414 FTIMFVGVNMTFFPQHFLGLSGMPRRYSDYPD-AYTTWNTVSSMGSFISLTAVMLMIFMI 472
Query: 448 QLIVSYRKRHTLIDITGDPWNGRTLEWSTSSPPPVYNF 485
+ ++ +++T LEW PPP + F
Sbjct: 473 WEAFASKREVLTVELT-----TTNLEWLHGCPPPYHTF 505
>gnl|CDD|214419 MTH00077, COX1, cytochrome c oxidase subunit I; Provisional.
Length = 514
Score = 330 bits (847), Expect = e-107
Identities = 183/458 (39%), Positives = 277/458 (60%), Gaps = 10/458 (2%)
Query: 32 YNQIFTAHGVIMIFFVAMP-LVTGIINFIVPLQIGARDVAFPFLNNLSFWMTSGGAILVM 90
YN I TAH +MIFF+ MP ++ G N++VPL IGA D+AFP +NN+SFW+ +L++
Sbjct: 54 YNVIVTAHAFVMIFFMVMPIMIGGFGNWLVPLMIGAPDMAFPRMNNMSFWLLPPSFLLLL 113
Query: 91 ISLFIGEFASTGWLGYPPLSGIAQSPGVGVDYYIWSLQIAGIGTLLSGINMIATIIKMRA 150
S + A TGW YPPL+G G VD I+SL +AG+ ++L IN I T I M+
Sbjct: 114 ASSGVEAGAGTGWTVYPPLAGNLAHAGASVDLTIFSLHLAGVSSILGAINFITTSINMKP 173
Query: 151 PGMKLMNMPIFTWTALCTNILIVAAFPVLTSVLFLSTLDRYIGTHFFTNDLGGNIMMYVN 210
P M P+F W+ L T +L++ + PVL + + + DR + T FF GG+ ++Y +
Sbjct: 174 PSMSQYQTPLFVWSVLITAVLLLLSLPVLAAGITMLLTDRNLNTTFFDPAGGGDPVLYQH 233
Query: 211 LIWIWGHPEVYILVLPVFGIFSEVVSTFSSKRL-FGYSSMVYATVVITLLSYIVWLHHFF 269
L W +GHPEVYIL+LP FG+ S +V+ +S+K+ FGY MV+A + I LL +IVW HH F
Sbjct: 234 LFWFFGHPEVYILILPGFGMISHIVTYYSAKKEPFGYMGMVWAMMSIGLLGFIVWAHHMF 293
Query: 270 TMGSGANVNAFFGITTMIISIPTGAKIFNWLFTMYRGRIRFEVPILWTIGFMITFVIGGM 329
T+ + A+F TMII+IPTG K+F+WL TM+ G I+++ +LW +GF+ F +GG+
Sbjct: 294 TVDLNVDTRAYFTSATMIIAIPTGVKVFSWLATMHGGAIKWDAAMLWALGFIFLFTVGGL 353
Query: 330 AGVILAVPAANFLLHNSLFLVAHFHNVIIGGVLFGLMSGINYWFPKAFGYKLEPFWGKCS 389
G++LA + + +LH++ ++VAHFH V+ G +F +M G +WFP GY L W K
Sbjct: 354 TGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMGGFVHWFPLFSGYTLHSTWSKIH 413
Query: 390 FWFWLIGFYVAFMPLYILGFMGVTRRMSHFEDISLQIWFQIAAFGTL--LIAMGILSFII 447
F IG + F P + LG G+ RR S + D + +W +++ G+L L+A+ ++ FII
Sbjct: 414 FGVMFIGVNLTFFPQHFLGLAGMPRRYSDYPD-AYTLWNTVSSIGSLISLVAVIMMMFII 472
Query: 448 QLIVSYRKRHTLIDITGDPWNGRTLEWSTSSPPPVYNF 485
S ++ ++ +EW PPP + F
Sbjct: 473 WEAFSSKR-----EVLTTELTSTNIEWLHGCPPPYHTF 505
>gnl|CDD|133649 MTH00007, COX1, cytochrome c oxidase subunit I; Validated.
Length = 511
Score = 326 bits (837), Expect = e-105
Identities = 175/455 (38%), Positives = 272/455 (59%), Gaps = 6/455 (1%)
Query: 32 YNQIFTAHGVIMIFFVAMP-LVTGIINFIVPLQIGARDVAFPFLNNLSFWMTSGGAILVM 90
YN I TAH +MIFF+ MP + G N++VPL +GA D+AFP LNN+SFW+ IL++
Sbjct: 51 YNTIVTAHAFLMIFFLVMPVFIGGFGNWLVPLMLGAPDMAFPRLNNMSFWLLPPALILLV 110
Query: 91 ISLFIGEFASTGWLGYPPLSGIAQSPGVGVDYYIWSLQIAGIGTLLSGINMIATIIKMRA 150
S + + TGW YPPL+ G VD I+SL +AG+ ++L IN I T+I MR
Sbjct: 111 SSAAVEKGVGTGWTVYPPLASNLAHAGPSVDLAIFSLHLAGVSSILGAINFITTVINMRW 170
Query: 151 PGMKLMNMPIFTWTALCTNILIVAAFPVLTSVLFLSTLDRYIGTHFFTNDLGGNIMMYVN 210
G++L +P+F W + T +L++ + PVL + + DR + T FF GG+ ++Y +
Sbjct: 171 KGLRLERIPLFVWAVVITVVLLLLSLPVLAGAITMLLTDRNLNTSFFDPAGGGDPILYQH 230
Query: 211 LIWIWGHPEVYILVLPVFGIFSEVVSTFSSK-RLFGYSSMVYATVVITLLSYIVWLHHFF 269
L W +GHPEVYIL+LP FG S +V+ ++ K FG M+YA + I +L +IVW HH F
Sbjct: 231 LFWFFGHPEVYILILPGFGAISHIVTHYAGKLEPFGTLGMIYAMLGIGVLGFIVWAHHMF 290
Query: 270 TMGSGANVNAFFGITTMIISIPTGAKIFNWLFTMYRGRIRFEVPILWTIGFMITFVIGGM 329
T+G + A+F TMII++PTG K+F+WL T++ I++E P+LW +GF+ F GG+
Sbjct: 291 TVGMDVDTRAYFTAATMIIAVPTGIKVFSWLATIHGSPIKYETPMLWALGFIFLFTTGGL 350
Query: 330 AGVILAVPAANFLLHNSLFLVAHFHNVIIGGVLFGLMSGINYWFPKAFGYKLEPFWGKCS 389
G++L+ + + +LH++ ++VAHFH V+ G +F + + N+WFP G L W K
Sbjct: 351 TGIVLSNSSLDIILHDTYYVVAHFHYVLSMGAVFAIFAAFNHWFPLFTGLTLHDRWAKAH 410
Query: 390 FWFWLIGFYVAFMPLYILGFMGVTRRMSHFEDISLQIWFQIAAFGTLLIAMGILSFIIQL 449
F+ +G + F P + LG G+ RR S + D + W +++FG++L + +L FI L
Sbjct: 411 FFLMFLGVNLTFFPQHFLGLSGMPRRYSDYPDAYTK-WNVVSSFGSMLSFVALLLFIFIL 469
Query: 450 IVSYRKRHTLIDITGDPWNGRTLEWSTSSPPPVYN 484
++ + +I P +LEW + P +N
Sbjct: 470 WEAFSAQRGVI---ASPHMSSSLEWQDTLPLDFHN 501
>gnl|CDD|177148 MTH00079, COX1, cytochrome c oxidase subunit I; Provisional.
Length = 508
Score = 324 bits (833), Expect = e-104
Identities = 168/459 (36%), Positives = 268/459 (58%), Gaps = 13/459 (2%)
Query: 32 YNQIFTAHGVIMIFFVAMP-LVTGIINFIVPLQIGARDVAFPFLNNLSFWMTSGGAILVM 90
YN + TAH ++MIFF+ MP ++ G N+++PL +GA D++FP LNNLSFW+ L++
Sbjct: 55 YNSVITAHAILMIFFMVMPSMIGGFGNWMLPLMLGAPDMSFPRLNNLSFWLLPTSLFLIL 114
Query: 91 ISLFIGEFASTGWLGYPPLSGIAQSPGVGVDYYIWSLQIAGIGTLLSGINMIATIIKMRA 150
S F+ T W YPPLS + PG VD I+SL AGI ++L GIN + T +R+
Sbjct: 115 DSCFVDMGPGTSWTVYPPLSTLGH-PGSSVDLAIFSLHCAGISSILGGINFMVTTKNLRS 173
Query: 151 PGMKLMNMPIFTWTALCTNILIVAAFPVLTSVLFLSTLDRYIGTHFFTNDLGGNIMMYVN 210
+ L +M +F WT T L+V + PVL + + DR + T FF GGN ++Y +
Sbjct: 174 SSISLEHMSLFVWTVFVTVFLLVLSLPVLAGAITMLLTDRNLNTSFFDPSTGGNPLLYQH 233
Query: 211 LIWIWGHPEVYILVLPVFGIFSEVVSTFSSK-RLFGYSSMVYATVVITLLSYIVWLHHFF 269
L W +GHPEVYIL+LP FGI S+ + K +FG MVYA + I L+ +VW HH +
Sbjct: 234 LFWFFGHPEVYILILPAFGIISQSTLYLTGKKEVFGSLGMVYAILSIGLIGCVVWAHHMY 293
Query: 270 TMGSGANVNAFFGITTMIISIPTGAKIFNWLFTMYRGRIRFEVPILWTIGFMITFVIGGM 329
T+G + A+F TM+I++PTG K+F+WL T++ +++F+ +LW +GF+ F IGG+
Sbjct: 294 TVGMDLDSRAYFTAATMVIAVPTGVKVFSWLATLFGMKMKFQPLLLWVLGFIFLFTIGGL 353
Query: 330 AGVILAVPAANFLLHNSLFLVAHFHNVIIGGVLFGLMSGINYWFPKAFGYKLEPFWGKCS 389
GVIL+ + + +LH++ ++V+HFH V+ G +FG+ +GI+ W+P G +
Sbjct: 354 TGVILSNSSLDIILHDTYYVVSHFHYVLSLGAVFGIFTGISLWWPFMTGIVYDKLMMSAV 413
Query: 390 FWFWLIGFYVAFMPLYILGFMGVTRRMSHFEDISLQIWFQIAAFGTLLIAMGILSFIIQL 449
F+ +G + F PL+ G G+ R+ + D+ +W I+++G+++ + FI L
Sbjct: 414 FFLMFVGVNLTFFPLHFAGLHGMPRKYLDYPDVYS-VWNVISSYGSMISVFALFLFIYVL 472
Query: 450 ---IVSYRKRHTLIDITGDPWNGRTLEWSTSSPPPVYNF 485
SYR + D + + E+S SS +++
Sbjct: 473 LESFFSYRL------VLHDNYINSSPEYSLSSYVFGHSY 505
>gnl|CDD|164599 MTH00026, COX1, cytochrome c oxidase subunit I; Provisional.
Length = 534
Score = 323 bits (830), Expect = e-104
Identities = 188/474 (39%), Positives = 286/474 (60%), Gaps = 15/474 (3%)
Query: 32 YNQIFTAHGVIMIFFVAMP-LVTGIINFIVPLQIGARDVAFPFLNNLSFWMTSGGAILVM 90
YN I TAH +MIFF+ MP ++ G N+ VPL IGA D+AFP LNN+SFW+ L++
Sbjct: 55 YNVIVTAHAFVMIFFLVMPTMIGGFGNWFVPLMIGAPDMAFPRLNNISFWLLPPALFLLL 114
Query: 91 ISLFIGEFASTGWLGYPPLSGIAQSPGVGVDYYIWSLQIAGIGTLLSGINMIATIIKMRA 150
S + + A TGW YPPL+ I G VD I+SL +AG+ ++L +N I T++ MR
Sbjct: 115 GSSLVEQGAGTGWTVYPPLASIQAHSGGSVDMAIFSLHLAGLSSILGAMNFITTVMNMRT 174
Query: 151 PGMKLMNMPIFTWTALCTNILIVAAFPVLTSVLFLSTLDRYIGTHFFTNDLGGNIMMYVN 210
PGM + +P+F W+ T IL++ + PVL + + DR T FF GG+ ++Y +
Sbjct: 175 PGMTMSRIPLFVWSVFITAILLLLSLPVLAGAITMLLTDRNFNTTFFDPAGGGDPILYQH 234
Query: 211 LIWIWGHPEVYILVLPVFGIFSEVVSTFS-SKRLFGYSSMVYATVVITLLSYIVWLHHFF 269
L W +GHPEVYIL+LP FGI S+++S FS K++FGY MVYA + I +L +IVW HH +
Sbjct: 235 LFWFFGHPEVYILILPGFGIISQILSLFSYKKQIFGYLGMVYAMLAIGVLGFIVWAHHMY 294
Query: 270 TMGSGANVNAFFGITTMIISIPTGAKIFNWLFTMY-RGR-IRFEVPILWTIGFMITFVIG 327
+G + A+F TMII++PTG KIF+WL T+ GR + F P+ W +GF+ F IG
Sbjct: 295 VVGMDVDTRAYFTAATMIIAVPTGIKIFSWLATVSGSGRNLIFTTPMAWALGFIFLFTIG 354
Query: 328 GMAGVILAVPAANFLLHNSLFLVAHFHNVIIGGVLFGLMSGINYWFPKAFGYKLEPFWGK 387
G+ G++L+ + + LLH++ ++VAHFH V+ G +F + G WF K GY + +G
Sbjct: 355 GLTGIVLSNSSLDILLHDTYYVVAHFHFVLSMGAVFAIFGGFYLWFGKITGYAYKDIYGL 414
Query: 388 CSFWFWLIGFYVAFMPLYILGFMGVTRRMSHFEDISLQIWFQIAAFGTLLIAMGILSFII 447
FW IG + F P + LG G+ RR + + D + + + QI++FG+++ + ++ FI+
Sbjct: 415 IHFWLMFIGVNITFFPQHFLGLAGLPRRYADYPD-NFEDFNQISSFGSIISIIAVIWFIV 473
Query: 448 QLIVSYRK----------RHTLIDITGDPWNGRTLEWSTSSPPPVYNFAFIPLI 491
+ +Y + + LI + P + TLEWS +SPP + + +P I
Sbjct: 474 VIFDAYYREEPFDINIMAKGPLIPFSCQPAHFDTLEWSLTSPPEHHTYNELPYI 527
>gnl|CDD|177123 MTH00048, COX1, cytochrome c oxidase subunit I; Provisional.
Length = 511
Score = 263 bits (674), Expect = 4e-81
Identities = 143/401 (35%), Positives = 227/401 (56%), Gaps = 6/401 (1%)
Query: 24 FGYLPPEHYNQIFTAHGVIMIFFVAMP-LVTGIINFIVPLQIGARDVAFPFLNNLSFWMT 82
+ + + YN + T HG+IMIFF MP L+ G N+++PL +G D+ P LN LS W+
Sbjct: 47 YNVISLDVYNFLITNHGIIMIFFFLMPVLIGGFGNYLLPLLLGLSDLNLPRLNALSAWLL 106
Query: 83 SGGAILVMISLFIGEFASTGWLGYPPLSGIAQSPGVGVDYYIWSLQIAGIGTLLSGINMI 142
+ +++S+ +G A GW YPPLS S GVD+ ++SL +AG+ +L IN I
Sbjct: 107 VPSIVFLLLSMCLG--AGVGWTFYPPLSSSLFSSSWGVDFLMFSLHLAGVSSLFGSINFI 164
Query: 143 ATIIKMRAPGMKLMNMPIFTWTALCTNILIVAAFPVLTSVLFLSTLDRYIGTHFFTNDLG 202
TI + I W+ L T+IL++ + PVL + + + DR G+ FF G
Sbjct: 165 CTIYSAFMTNVFS-RTSIILWSYLFTSILLLLSLPVLAAAITMLLFDRNFGSAFFDPLGG 223
Query: 203 GNIMMYVNLIWIWGHPEVYILVLPVFGIFSEVVSTFS-SKRLFGYSSMVYATVVITLLSY 261
G+ +++ ++ W +GHPEVY+L+LP FGI S + + S + FGY +V+A I L
Sbjct: 224 GDPVLFQHMFWFFGHPEVYVLILPGFGIISHICLSLSNNDDPFGYYGLVFAMFSIVCLGS 283
Query: 262 IVWLHHFFTMGSGANVNAFFGITTMIISIPTGAKIFNWLFTMYRGRIRFEVPIL-WTIGF 320
+VW HH FT+G FF TMII +PTG K+F+WL+ + R+R P++ W + F
Sbjct: 284 VVWAHHMFTVGLDVKTAVFFSSVTMIIGVPTGIKVFSWLYMLLNSRVRKSDPVVWWVVSF 343
Query: 321 MITFVIGGMAGVILAVPAANFLLHNSLFLVAHFHNVIIGGVLFGLMSGINYWFPKAFGYK 380
++ F IGG+ G++L+ + +LH++ F+VAHFH V+ G ++ +W+P G
Sbjct: 344 IVLFTIGGVTGIVLSASVLDNVLHDTWFVVAHFHYVLSLGSYSSVVIMFIWWWPLITGLS 403
Query: 381 LEPFWGKCSFWFWLIGFYVAFMPLYILGFMGVTRRMSHFED 421
L + +C +IGF + F P++ G G+ RR+ +E
Sbjct: 404 LNKYLLQCHCIISMIGFNLCFFPMHYFGLCGLPRRVCVYEP 444
>gnl|CDD|238830 cd01660, ba3-like_Oxidase_I, ba3-like heme-copper oxidase subunit
I. The ba3 family of heme-copper oxidases are
transmembrane protein complexes in the respiratory
chains of prokaryotes and some archaea which catalyze
the reduction of O2 and simultaneously pump protons
across the membrane. It has been proposed that Archaea
acquired heme-copper oxidases through gene transfer from
Gram-positive bacteria. The ba3 family contains
oxidases that lack the conserved residues that form the
D- and K-pathways in CcO and ubiquinol oxidase. Instead
they contain a potential alternative K-pathway.
Additional proton channels have been proposed for this
family of oxidases but none have been identified
definitively. For general information on the
heme-copper oxidase superfamily, please see cd00919.
Length = 473
Score = 98.1 bits (245), Expect = 9e-22
Identities = 101/455 (22%), Positives = 178/455 (39%), Gaps = 55/455 (12%)
Query: 29 PEHYNQIFTAHGVIMIFFVAMPLVTGIINFIVPLQIGARDVAFPFLNNLSFWMTSGGAIL 88
Y Q T HGV++ + G IV + FW+ G ++
Sbjct: 41 GILYYQGLTLHGVLLAIVFTTFFIMGFFYAIVARALLRSLFNRRLAW-AGFWLMVIGTVM 99
Query: 89 VMISLFIGEFASTGWLGYPPLSGIAQSPGVGVDYYIWSLQIAGIGTLLSGINMIATIIKM 148
+ + +G+ AS + YPPL +YI + +G+ +SG M T+ +
Sbjct: 100 AAVPILLGQ-ASVLYTFYPPLQA-------HPLFYI-GAALVVVGSWISGFAMFVTLWRW 150
Query: 149 RA--PGMKLMNMPIFTWTALCTNIL-IVAAFPVLTSVLFLSTLDRYIGTHFFTNDLGGNI 205
+ PG K+ P+ T+ + T IL +VA+ V VLF + D ++
Sbjct: 151 KKANPGKKV---PLATFMVVTTMILWLVASLGVALEVLFQL-----LPWSLGLVD-TVDV 201
Query: 206 MMYVNLIWIWGHPEVYILVLPVFGIFSEVVSTFSSKRLFGYSSMVYATVVITLLSYIVWL 265
++ L W +GHP VY +LP + + ++ + +LF A ++ L S V
Sbjct: 202 LLSRTLFWWFGHPLVYFWLLPAYIAWYTILPKIAGGKLFSDPLARLAFILFLLFSTPVGF 261
Query: 266 HHFFTMGSGANVNAFFGIT-TMIISIPT-------------------GAKIFNWLFTMYR 305
HH F F + T ++++P+ G +F W+ +
Sbjct: 262 HHQFADPGIGPGWKFIHMVLTFMVALPSLLTAFTVFASLEIAGRLRGGKGLFGWIRALPW 321
Query: 306 GRIRFEVPILWTIGFMITFVIGGMAGVILAVPAANFLLHNSLFLVAHFHNVIIGGVLFGL 365
G F L M+ F+ GG G+I A N+++HN+ ++ HFH + G V
Sbjct: 322 GDPMFLALFL----AMLMFIPGGAGGIINASYQLNYVVHNTAWVPGHFHLTVGGAVALTF 377
Query: 366 MSGINYWF-PKAFGYKLEPFW-GKCSFWFWLIGFYVAFMPLYILGFMGVTRRMSHFE--- 420
M + YW P G +L W W +G + +++ G +G RR + +
Sbjct: 378 M-AVAYWLVPHLTGRELAAKRLALAQPWLWFVGMTIMSTAMHVAGLLGAPRRTAEAQYGG 436
Query: 421 ---DISLQIWFQIAAFGTLLIAMGILSFIIQLIVS 452
+ Q+ A G ++ + F+ L +
Sbjct: 437 LPAAGEWAPYQQLMAIGGTILFVSGALFLYILFRT 471
>gnl|CDD|129862 TIGR00780, ccoN, cytochrome c oxidase, cbb3-type, subunit I. This
model represents the largest subunit, I, of the
ccb3-type cytochrome c oxidase, with two protohemes and
copper. It shows strong homology to subunits of other
types of cytochrome oxidases. Species with this type,
all from the Proteobacteria so far, include Neisseria
meningitidis, Helicobacter pylori, Campylobacter jejuni,
Rhodobacter sphaeroides, Rhizobium leguminosarum, and
others. Gene symbols ccoN and fixN are synonymous
[Energy metabolism, Electron transport].
Length = 474
Score = 37.5 bits (87), Expect = 0.016
Identities = 41/203 (20%), Positives = 83/203 (40%), Gaps = 5/203 (2%)
Query: 213 WIWGHPEV-YILVLPVFGIFSEVVSTFSSKRLFGYSSMVYATVVITLLSYIVWLHHFFTM 271
W +GH V + L G+ + + + ++ Y ++ + + HH
Sbjct: 202 WWYGHNAVGFFLTAGFLGMMYYFLPKQAGRPVYSYKLSLFHFWALIFVYIWAGPHHLHYT 261
Query: 272 GSGANVNAFFGITTMIISIPTGAKIFNWLFTMYRGRIRF-EVPILWTIGFMITF-VIGGM 329
V + ++I+ +P+ + N L T+ + PI+ + TF +
Sbjct: 262 ALPDWVQTLGMVFSVILILPSWGGMINGLMTLSGAWDKLRTDPIIKFLVVASTFYGMSTF 321
Query: 330 AGVILAVPAANFLLHNSLFLVAHFHNVIIGGVLFGLMSGINYWFPKAFGYKLEPFWGKCS 389
G ++++ + N L H + + + H H+ +G V F + + Y P+ FG +
Sbjct: 322 EGPMMSIKSVNALSHYTDWTIGHVHDGALGWVGFTTIGSMYYMTPRLFGRERIYSTRLVD 381
Query: 390 FWFWL--IGFYVAFMPLYILGFM 410
F FW+ IG + F ++I G M
Sbjct: 382 FHFWIATIGIVLYFASMWIAGIM 404
>gnl|CDD|184703 PRK14485, PRK14485, putative bifunctional cbb3-type cytochrome c
oxidase subunit I/II; Provisional.
Length = 712
Score = 34.7 bits (80), Expect = 0.15
Identities = 28/100 (28%), Positives = 47/100 (47%), Gaps = 7/100 (7%)
Query: 317 TIGFMITFVIG-GMA---GVILAVPAANFLLHNSLFLVAHFHNVIIGGVLFGLMSGINYW 372
+ F + + GMA G +L++ N + H + +++AH H +G F L G+ YW
Sbjct: 305 VLKFFVVAITFYGMATFEGPMLSLKNVNAIAHYTDWIIAHVHVGALGWNGF-LTFGMLYW 363
Query: 373 -FPKAFGYKL-EPFWGKCSFWFWLIGFYVAFMPLYILGFM 410
P+ F KL FW +G + +P+Y+ GF
Sbjct: 364 LLPRLFKTKLYSTKLANFHFWIGTLGIILYALPMYVAGFT 403
>gnl|CDD|237699 PRK14392, PRK14392, membrane protein; Provisional.
Length = 207
Score = 31.2 bits (71), Expect = 1.1
Identities = 13/37 (35%), Positives = 22/37 (59%)
Query: 530 FSLIMGFALVWHMWLLTIISFIITLIIVIYNTFNYKR 566
LI +LV+H WLLT ++ +T+++ + N KR
Sbjct: 147 MVLITIISLVYHDWLLTTVACGLTVVVFYRHRSNIKR 183
>gnl|CDD|222497 pfam14015, DUF4231, Protein of unknown function (DUF4231). This
family of proteins is functionally uncharacterized. This
family of proteins is found in bacteria, archaea,
eukaryotes and viruses. Proteins in this family are
typically between 148 and 288 amino acids in length.
Length = 112
Score = 29.3 bits (66), Expect = 1.9
Identities = 13/75 (17%), Positives = 34/75 (45%), Gaps = 4/75 (5%)
Query: 498 WYMKK---NNFKFPKDKFQDILMPKNTNIGILISIFSLIMGFALVWHMWLLTIISFIITL 554
WY KK N ++ + I++ + ++ + + G A + + I+S ++ +
Sbjct: 6 WYDKKANKNQRRYYLLRILSIILLVLGAVIPVLVGLAPLGGGA-AYLKLVAAILSALVAI 64
Query: 555 IIVIYNTFNYKRNYY 569
+ + + F Y+ N+
Sbjct: 65 LASLLSLFKYQENWI 79
>gnl|CDD|163458 TIGR03746, conj_TIGR03746, integrating conjugative element protein,
PFL_4703 family. Members of this protein family are
found occasionally on plasmids such as the Pseudomonas
putida TOL plasmid pWWO_p085. Usually, however, they are
found on the bacterial main chromosome in regions
flanked by markers of conjugative transfer and/or
transposition. The function is unknown [Mobile and
extrachromosomal element functions, Plasmid functions].
Length = 202
Score = 30.4 bits (69), Expect = 2.1
Identities = 20/56 (35%), Positives = 29/56 (51%), Gaps = 3/56 (5%)
Query: 435 TLLIAMGILSFI-IQLIVSYRK--RHTLIDITGDPWNGRTLEWSTSSPPPVYNFAF 487
TL IA+G+L+ I + L +R + I + D +G T +W P VY FAF
Sbjct: 14 TLRIAIGLLALILLALWFGWRTAPKDLTIHVPPDLRSGSTRKWWEVPPENVYAFAF 69
>gnl|CDD|184287 PRK13735, PRK13735, conjugal transfer mating pair stabilization
protein TraG; Provisional.
Length = 942
Score = 30.5 bits (69), Expect = 3.1
Identities = 16/63 (25%), Positives = 27/63 (42%), Gaps = 11/63 (17%)
Query: 512 FQDILMPKNTNIGILISIFSLIMGFALVWHMWLLTIISFIITLII-----VIYNTFNYKR 566
Q ILM GI I IF L++ A+ + L + ++ L+ ++Y N
Sbjct: 328 MQTILM------GIAIGIFPLLVLAAVFNKLTLSVLKGYVFALMWLQSWPLLYAILNSAM 381
Query: 567 NYY 569
+Y
Sbjct: 382 TFY 384
>gnl|CDD|233438 TIGR01494, ATPase_P-type, ATPase, P-type (transporting), HAD
superfamily, subfamily IC. The P-type ATPases are a
large family of trans-membrane transporters acting on
charged substances. The distinguishing feature of the
family is the formation of a phosphorylated intermediate
(aspartyl-phosphate) during the course of the reaction.
Another common name for these enzymes is the E1-E2
ATPases based on the two isolable conformations: E1
(unphosphorylated) and E2 (phosphorylated). Generally,
P-type ATPases consist of only a single subunit
encompassing the ATPase and ion translocation pathway,
however, in the case of the potassium (TIGR01497) and
sodium/potassium (TIGR01106) varieties, these functions
are split between two subunits. Additional small
regulatory or stabilizing subunits may also exist in
some forms. P-type ATPases are nearly ubiquitous in life
and are found in numerous copies in higher organisms (at
least 45 in Arabidopsis thaliana, for instance ).
Phylogenetic analyses have revealed that the P-type
ATPase subfamily is divided up into groups based on
substrate specificities and this is represented in the
various subfamily and equivalog models that have been
made: IA (K+) TIGR01497, IB (heavy metals) TIGR01525,
IIA1 (SERCA-type Ca++) TIGR01116, IIA2 (PMR1-type Ca++)
TIGR01522, IIB (PMCA-type Ca++) TIGR01517, IIC (Na+/K+,
H+/K+ antiporters) TIGR01106, IID (fungal-type Na+ and
K+) TIGR01523, IIIA (H+) TIGR01647, IIIB (Mg++)
TIGR01524, IV (phospholipid, flippase) TIGR01652 and V
(unknown specificity) TIGR01657. The crystal structure
of one calcium-pumping ATPase and an analysis of the
fold of the catalytic domain of the P-type ATPases have
been published. These reveal that the catalytic core of
these enzymes is a haloacid dehalogenase(HAD)-type
aspartate-nucleophile hydrolase. The location of the
ATP-binding loop in between the first and second HAD
conserved catalytic motifs defines these enzymes as
members of subfamily I of the HAD superfamily (see also
TIGR01493, TIGR01509, TIGR01549, TIGR01544 and
TIGR01545). Based on these classifications, the P-type
ATPase _superfamily_ corresponds to the IC subfamily of
the HAD superfamily.
Length = 543
Score = 30.0 bits (68), Expect = 3.7
Identities = 13/96 (13%), Positives = 30/96 (31%), Gaps = 3/96 (3%)
Query: 198 TNDLGGNIMMYVNLIWIWGHPEVYILVLPVFGIFSEVVSTFSSKRLFGYSSMVYATVVIT 257
T GG +++ V I V + + V F S + + +++
Sbjct: 113 TYVFGGTLIVVVTPTGIL--TTVGRIAVVVKTGFETRTPLQSKRDRLENFIFILFLLLLA 170
Query: 258 LLSYIVWLHHFFTMGSGANVNAFFGITTMIISIPTG 293
L ++ + S + ++I +P
Sbjct: 171 LAVFLYLFIRGWDPNSI-FKALLRALIVLVIVVPPA 205
>gnl|CDD|238831 cd01661, cbb3_Oxidase_I, Cytochrome cbb3 oxidase subunit I.
Cytochrome cbb3 oxidase, the terminal oxidase in the
respiratory chains of proteobacteria, is a multi-chain
transmembrane protein located in the cell membrane. Like
other cytochrome oxidases, it catalyzes the reduction of
O2 and simultaneously pumps protons across the membrane.
Found mainly in proteobacteria, cbb3 is believed to be
a modern enzyme that has evolved independently to
perform a specialized function in microaerobic energy
metabolism. Subunit I contains a heme-copper binuclear
center (the active site where O2 is reduced to water)
formed by a high-spin heme and a copper ion. It also
contains a low-spin heme, believed to participate in the
transfer of electrons to the binuclear center. The cbb3
operon contains four genes (ccoNOQP or fixNOQP), with
ccoN coding for subunit I. Instead of a CuA-containing
subunit II analogous to other cytochrome oxidases, cbb3
utilizes subunits ccoO and ccoP, which contain one and
two hemes, respectively, to transfer electrons to the
binuclear center. The fourth subunit (ccoQ) has been
shown to protect the core complex from proteolytic
degradation by serine proteases. For every reduction of
an O2 molecule, eight protons are taken from the inside
aqueous compartment and four electrons are taken from
cytochrome c on the opposite side of the membrane. The
four electrons and four of the protons are used in the
reduction of O2; the four remaining protons are pumped
across the membrane. This charge separation of four
charges contributes to the electrochemical gradient used
for ATP synthesis. The polar residues that form the D-
and K-pathways in subunit I of other cytochrome c and
ubiquinol oxidases are absent in cbb3. The proton
pathways remain undefined. A pathway for the transfer
of pumped protons beyond the binuclear center also
remains undefined. It is believed that electrons are
passed from cytochrome c (the electron donor) to the
low-spin heme via ccoP and ccoO, respectively, and
directly from the low-spin heme to the binuclear center.
Length = 493
Score = 30.0 bits (68), Expect = 4.0
Identities = 34/133 (25%), Positives = 63/133 (47%), Gaps = 11/133 (8%)
Query: 285 TMIISIPTGAKIFNWLFTMYRG---RIRFEVPILWTIGFMITFVIGGMA---GVILAVPA 338
++++ +P+ A + N L T+ RG ++R + P L + F G++ G +A+ A
Sbjct: 311 SVMLWMPSWAGMINGLLTL-RGAWDKLRTD-PTLRFMVVGGAFY--GLSTFEGSFMAIRA 366
Query: 339 ANFLLHNSLFLVAHFHNVIIGGVLFGLMSGINYWFPKAFGYK-LEPFWGKCSFWFWLIGF 397
N L H + + V H H +G V F I + P+ + + P + FW IG
Sbjct: 367 VNSLSHYTDWTVGHVHLGALGWVGFITFGAIYFLVPRIWKREWPSPKLVEWHFWLATIGI 426
Query: 398 YVAFMPLYILGFM 410
+ F+ ++I G +
Sbjct: 427 VIYFVAMWISGIL 439
>gnl|CDD|217749 pfam03824, NicO, High-affinity nickel-transport protein. High
affinity nickel transporters involved in the
incorporation of nickel into H2-uptake hydrogenase and
urease enzymes. Essential for the expression of
catalytically active hydrogenase and urease. Ion uptake
is dependent on proton motive force. HoxN in Alcaligenes
eutrophus is thought to be an integral membrane protein
with seven transmembrane helices. The family also
includes a cobalt transporter.
Length = 278
Score = 29.3 bits (66), Expect = 4.7
Identities = 15/62 (24%), Positives = 25/62 (40%), Gaps = 1/62 (1%)
Query: 404 LYILGFMGVTRRMSHFEDISLQIWFQIAAFGTLLIAMGILSFIIQLIVSYRKRHTLIDIT 463
L LG V R + ++I I ++ L+I +G L + +L +RK
Sbjct: 58 LLALGVKLVLR-LPSLQEIGSTIGTLVSGSFLLIIGLGNLLLLRELRHLFRKLRRGRAPE 116
Query: 464 GD 465
D
Sbjct: 117 PD 118
>gnl|CDD|192760 pfam11444, DUF2895, Protein of unknown function (DUF2895). This is
a bacterial family of uncharacterized proteins.
Length = 199
Score = 28.8 bits (65), Expect = 6.0
Identities = 20/56 (35%), Positives = 28/56 (50%), Gaps = 3/56 (5%)
Query: 435 TLLIAMGILSFII-QLIVSYRK--RHTLIDITGDPWNGRTLEWSTSSPPPVYNFAF 487
TL +A+G+L I+ LIV + + I D +G T +W P VY FAF
Sbjct: 13 TLRLAIGLLFLILLVLIVGWMTAPKRLTIHNPPDLRSGSTRKWWEVPPENVYAFAF 68
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.332 0.145 0.476
Gapped
Lambda K H
0.267 0.0746 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 32,072,574
Number of extensions: 3395011
Number of successful extensions: 7819
Number of sequences better than 10.0: 1
Number of HSP's gapped: 7405
Number of HSP's successfully gapped: 609
Length of query: 585
Length of database: 10,937,602
Length adjustment: 102
Effective length of query: 483
Effective length of database: 6,413,494
Effective search space: 3097717602
Effective search space used: 3097717602
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 62 (27.6 bits)