RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2807
(288 letters)
>gnl|CDD|223968 COG1038, PycA, Pyruvate carboxylase [Energy production and
conversion].
Length = 1149
Score = 184 bits (468), Expect = 2e-52
Identities = 82/230 (35%), Positives = 114/230 (49%), Gaps = 38/230 (16%)
Query: 50 AKDVMENADKIIFPKSVSAFFQGSIGEPYQGFPKKLQEKVLGSLKDHT------------ 97
+DV +A+ + FP SV +FF+G +G+P GFP+ LQ+KVL + T
Sbjct: 898 EEDVENDANDLDFPDSVVSFFRGELGQPPGGFPEPLQKKVLKGREPLTDRPGELLEPADF 957
Query: 98 ----------LDRKP-ECD----LM----------MEDEFGPVDRLPTRIFLNGPNIGEE 132
L R+ + D L+ + +G V LPT F G GEE
Sbjct: 958 EAIRKELEEKLGREVSDQDVASYLLYPKVFEDYQKHRETYGDVSVLPTPTFFYGLRPGEE 1017
Query: 133 FSCEFKTGDTAYVTTLSISERLNDHGERTVFFLYNGQLRSVLIRDKNQAKKLKLRSKADS 192
E + G T + +I E ++ G RTV+F NGQ R + ++D++ + R KAD
Sbjct: 1018 IEVEIEKGKTLIIKLQAIGE-PDEKGMRTVYFELNGQPREIKVKDRSVGSSVVARRKADP 1076
Query: 193 DTAGEIGAPMPGNIIEVKAKVGQQVKKNDVLIVMSVMKTETLIHASADGV 242
G IGAPMPG ++EVK K G +VKK DVL V+ MK ET I A DG
Sbjct: 1077 GNPGHIGAPMPGVVVEVKVKKGDKVKKGDVLAVIEAMKMETTISAPFDGT 1126
>gnl|CDD|130302 TIGR01235, pyruv_carbox, pyruvate carboxylase. This enzyme plays a
role in gluconeogensis but not glycolysis [Energy
metabolism, Glycolysis/gluconeogenesis].
Length = 1143
Score = 181 bits (461), Expect = 1e-51
Identities = 82/233 (35%), Positives = 111/233 (47%), Gaps = 40/233 (17%)
Query: 50 AKDVMENADKIIFPKSVSAFFQGSIGEPYQGFPKKLQEKVL----------GSL------ 93
DV+E A+++ FP SV F +G IG+P+ GFP+ LQ+KVL GSL
Sbjct: 893 VDDVVEPAEELSFPDSVVEFLKGDIGQPHGGFPEPLQKKVLKGEKPITVRPGSLLEPADL 952
Query: 94 --------KDHTLDRKPECDLM--------------MEDEFGPVDRLPTRIFLNGPNIGE 131
+ H + + D+ D +GPV LPT F G GE
Sbjct: 953 DAIRKDLQEKHEREVS-DFDVASYAMYPKVFTDFAKARDTYGPVSVLPTPAFFYGLADGE 1011
Query: 132 EFSCEFKTGDTAYVTTLSISERLNDHGERTVFFLYNGQLRSVLIRDKNQAKKLKLRSKAD 191
E + + G T + ++ + GER VFF NGQ R + + D++ + +R KAD
Sbjct: 1012 EIEVDIEKGKTLIIKLQAVGA-TDSQGEREVFFELNGQPRRIKVPDRSHKAEAAVRRKAD 1070
Query: 192 SDTAGEIGAPMPGNIIEVKAKVGQQVKKNDVLIVMSVMKTETLIHASADGVHK 244
+GAPMPG IIEVK GQ V K D L+V+ MK ET I A DG K
Sbjct: 1071 PGNPAHVGAPMPGVIIEVKVSSGQAVNKGDPLVVLEAMKMETAIQAPKDGTIK 1123
>gnl|CDD|237263 PRK12999, PRK12999, pyruvate carboxylase; Reviewed.
Length = 1146
Score = 180 bits (460), Expect = 3e-51
Identities = 78/231 (33%), Positives = 111/231 (48%), Gaps = 40/231 (17%)
Query: 50 AKDVMENADKIIFPKSVSAFFQGSIGEPYQGFPKKLQEKVL------------------- 90
+DV E + + FP SV +F +G +G+P GFP+ LQ+KVL
Sbjct: 895 PEDVYEPGEDLDFPDSVVSFLKGELGQPPGGFPEPLQKKVLKGEEPITVRPGELLEPVDF 954
Query: 91 ----GSLKDHTLDRKP-ECDLMM--------------EDEFGPVDRLPTRIFLNGPNIGE 131
L++ L R+ + D++ +E+G V LPT F G GE
Sbjct: 955 EAERAELEEK-LGREVTDRDVLSYLLYPKVFEDYIKHREEYGDVSVLPTPTFFYGLRPGE 1013
Query: 132 EFSCEFKTGDTAYVTTLSISERLNDHGERTVFFLYNGQLRSVLIRDKNQAKKLKLRSKAD 191
E E + G T + +I E ++ G RTV+F NGQ R V +RD++ + R KAD
Sbjct: 1014 EIEVEIEPGKTLIIKLEAIGE-PDEDGMRTVYFELNGQPREVQVRDRSVKSTVAAREKAD 1072
Query: 192 SDTAGEIGAPMPGNIIEVKAKVGQQVKKNDVLIVMSVMKTETLIHASADGV 242
G +GAPMPG+++ V K G +VK D L V+ MK ET I A DG
Sbjct: 1073 PGNPGHVGAPMPGSVVTVLVKEGDEVKAGDPLAVIEAMKMETTITAPVDGT 1123
>gnl|CDD|133459 cd06850, biotinyl_domain, The biotinyl-domain or biotin carboxyl
carrier protein (BCCP) domain is present in all
biotin-dependent enzymes, such as acetyl-CoA
carboxylase, pyruvate carboxylase, propionyl-CoA
carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA
carboxylase, oxaloacetate decarboxylase,
methylmalonyl-CoA decarboxylase, transcarboxylase and
urea amidolyase. This domain functions in transferring
CO2 from one subsite to another, allowing carboxylation,
decarboxylation, or transcarboxylation. During this
process, biotin is covalently attached to a specific
lysine.
Length = 67
Score = 68.6 bits (169), Expect = 3e-15
Identities = 18/46 (39%), Positives = 26/46 (56%)
Query: 197 EIGAPMPGNIIEVKAKVGQQVKKNDVLIVMSVMKTETLIHASADGV 242
E+ APMPG +++V K G +V+ L V+ MK E + A GV
Sbjct: 1 EVTAPMPGTVVKVLVKEGDKVEAGQPLAVLEAMKMENEVTAPVAGV 46
Score = 31.6 bits (73), Expect = 0.056
Identities = 11/30 (36%), Positives = 19/30 (63%)
Query: 197 EIGAPMPGNIIEVKAKVGQQVKKNDVLIVM 226
E+ AP+ G + E+ K G QV+ +L+V+
Sbjct: 38 EVTAPVAGVVKEILVKEGDQVEAGQLLVVI 67
>gnl|CDD|217032 pfam02436, PYC_OADA, Conserved carboxylase domain. This domain
represents a conserved region in pyruvate carboxylase
(PYC), oxaloacetate decarboxylase alpha chain (OADA),
and transcarboxylase 5s subunit. The domain is found
adjacent to the HMGL-like domain (pfam00682) and often
close to the biotin_lipoyl domain (pfam00364) of biotin
requiring enzymes.
Length = 198
Score = 68.7 bits (169), Expect = 6e-14
Identities = 33/128 (25%), Positives = 52/128 (40%), Gaps = 37/128 (28%)
Query: 52 DVMENADKIIFPKSVSAFFQGSIGEPYQGFPKKLQEKVLG-------------------- 91
+ FPKSV + +G G+P GFP++LQ+KVL
Sbjct: 67 TPVGEGRYKDFPKSVVDYLKGEYGQPPGGFPEELQKKVLKGEEPITCRPADLLEPVDLEK 126
Query: 92 ---SLKDHTLDRKPECDLM--------------MEDEFGPVDRLPTRIFLNGPNIGEEFS 134
L++ + + D++ +E+G V LPT +F G +GEE+S
Sbjct: 127 LRAELEEKAGRKLSDEDVLSYALFPKVAEKFLEHREEYGDVSVLPTPVFFYGMEVGEEYS 186
Query: 135 CEFKTGDT 142
E + G T
Sbjct: 187 VEVEPGKT 194
>gnl|CDD|227111 COG4770, COG4770, Acetyl/propionyl-CoA carboxylase, alpha subunit
[Lipid metabolism].
Length = 645
Score = 64.2 bits (157), Expect = 2e-11
Identities = 23/55 (41%), Positives = 35/55 (63%)
Query: 188 SKADSDTAGEIGAPMPGNIIEVKAKVGQQVKKNDVLIVMSVMKTETLIHASADGV 242
+K + ++GE+ APMPG ++ V K GQ+V D+L+V+ MK E + A DGV
Sbjct: 568 AKVAAASSGELLAPMPGTVVSVAVKEGQEVSAGDLLVVLEAMKMENTLRAPRDGV 622
>gnl|CDD|236449 PRK09282, PRK09282, pyruvate carboxylase subunit B; Validated.
Length = 592
Score = 62.2 bits (152), Expect = 7e-11
Identities = 24/86 (27%), Positives = 41/86 (47%), Gaps = 3/86 (3%)
Query: 157 HGERTVFFLYNGQLRSVLIRDKNQAKKLKLRSKADSDTAGEIGAPMPGNIIEVKAKVGQQ 216
G+R + +G V++ + + + G + +PMPG +++VK K G +
Sbjct: 487 EGKRPFYLRVDGMPEEVVVEPLKEIVVGG---RPRASAPGAVTSPMPGTVVKVKVKEGDK 543
Query: 217 VKKNDVLIVMSVMKTETLIHASADGV 242
VK D ++V+ MK E I A DG
Sbjct: 544 VKAGDTVLVLEAMKMENEIQAPVDGT 569
Score = 28.3 bits (64), Expect = 5.7
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 197 EIGAPMPGNIIEVKAKVGQQVKKNDVLIVM 226
EI AP+ G + E+ K G +V DVL+ +
Sbjct: 561 EIQAPVDGTVKEILVKEGDRVNPGDVLMEI 590
>gnl|CDD|237592 PRK14040, PRK14040, oxaloacetate decarboxylase; Provisional.
Length = 593
Score = 62.3 bits (152), Expect = 7e-11
Identities = 23/56 (41%), Positives = 33/56 (58%), Gaps = 1/56 (1%)
Query: 188 SKADSDTAGE-IGAPMPGNIIEVKAKVGQQVKKNDVLIVMSVMKTETLIHASADGV 242
+ A + AGE + AP+ GNI +V GQ V + DVL+++ MK ET I A+ G
Sbjct: 516 AAAPAAAAGEPVTAPLAGNIFKVIVTEGQTVAEGDVLLILEAMKMETEIRAAQAGT 571
>gnl|CDD|223585 COG0511, AccB, Biotin carboxyl carrier protein [Lipid metabolism].
Length = 140
Score = 55.9 bits (135), Expect = 7e-10
Identities = 20/71 (28%), Positives = 30/71 (42%)
Query: 172 SVLIRDKNQAKKLKLRSKADSDTAGEIGAPMPGNIIEVKAKVGQQVKKNDVLIVMSVMKT 231
S A + A + ++ +PM G + + +VG VK L ++ MK
Sbjct: 47 SPSAAAAQPAASAPAPAPAAAAGGTQVTSPMVGTVYKPFVEVGDTVKAGQTLAIIEAMKM 106
Query: 232 ETLIHASADGV 242
E I A ADGV
Sbjct: 107 ENEIEAPADGV 117
Score = 30.4 bits (69), Expect = 0.51
Identities = 12/31 (38%), Positives = 16/31 (51%)
Query: 197 EIGAPMPGNIIEVKAKVGQQVKKNDVLIVMS 227
EI AP G + E+ K G V+ D L V+
Sbjct: 109 EIEAPADGVVKEILVKNGDPVEYGDPLAVIE 139
>gnl|CDD|233273 TIGR01108, oadA, oxaloacetate decarboxylase alpha subunit. This
model describes the bacterial oxaloacetate decarboxylase
alpha subunit and its equivalents in archaea. The
oxaloacetate decarboxylase Na+ pump is the paradigm of
the family of Na+ transport decarboxylases that present
in bacteria and archaea. It a multi subunit enzyme
consisting of a peripheral alpha-subunit and integral
membrane subunits beta and gamma. The energy released by
the decarboxylation reaction of oxaloacetate is coupled
to Na+ ion pumping across the membrane [Transport and
binding proteins, Cations and iron carrying compounds,
Energy metabolism, Other].
Length = 582
Score = 55.2 bits (133), Expect = 1e-08
Identities = 39/207 (18%), Positives = 71/207 (34%), Gaps = 28/207 (13%)
Query: 64 KSVSAFFQGSIGEPYQGFPKKLQEKVLGSLKDHTLDR-----KPECDLMMEDEFGPVDRL 118
K + +G G +LQ K+LG K R +PE D + +
Sbjct: 358 KETKGYLKGEYGRTPAPINAELQRKILGDEKPIVDCRPADLLEPELDKLRAEVREAGAEK 417
Query: 119 PT--------------RIFLNGPNIGEEFSCEFKTGDTAYVTTLSISERLNDHGERTVFF 164
+ FL + F + + + + H +
Sbjct: 418 NSIEDVLTYALFPQVGLKFLENRHNPAAFEPKPEEKVIEQEHAQVVGKYEETHASGSYTV 477
Query: 165 LYNGQLRSVLIRDKNQAKKLKLRSKADSDTA---------GEIGAPMPGNIIEVKAKVGQ 215
G+ V + ++ + A++ + AP+ G+I++VK GQ
Sbjct: 478 EVEGKAFVVKVSPGGDVSQITASAPANTSGGTVAAKAGAGTPVTAPIAGSIVKVKVSEGQ 537
Query: 216 QVKKNDVLIVMSVMKTETLIHASADGV 242
V + +VL+++ MK ET I A+A G
Sbjct: 538 TVAEGEVLLILEAMKMETEIKAAAAGT 564
>gnl|CDD|201182 pfam00364, Biotin_lipoyl, Biotin-requiring enzyme. This family
covers two Prosite entries, the conserved lysine residue
binds biotin in one group and lipoic acid in the other.
Note that the HMM does not currently recognise the
Glycine cleavage system H proteins.
Length = 73
Score = 50.3 bits (121), Expect = 2e-08
Identities = 20/51 (39%), Positives = 24/51 (47%), Gaps = 5/51 (9%)
Query: 197 EIGAPMPGNII-----EVKAKVGQQVKKNDVLIVMSVMKTETLIHASADGV 242
EI +PM G + E KVG +VK VL + MK E I A GV
Sbjct: 2 EIKSPMIGESVKEGTAEWLVKVGDKVKAGQVLCEVEAMKMEMEIPAPVAGV 52
Score = 31.4 bits (72), Expect = 0.069
Identities = 11/30 (36%), Positives = 16/30 (53%)
Query: 197 EIGAPMPGNIIEVKAKVGQQVKKNDVLIVM 226
EI AP+ G + E+ K G V+ D L +
Sbjct: 44 EIPAPVAGVVKEILVKEGDTVEVGDPLAKI 73
>gnl|CDD|172536 PRK14042, PRK14042, pyruvate carboxylase subunit B; Provisional.
Length = 596
Score = 52.8 bits (126), Expect = 8e-08
Identities = 26/87 (29%), Positives = 46/87 (52%)
Query: 156 DHGERTVFFLYNGQLRSVLIRDKNQAKKLKLRSKADSDTAGEIGAPMPGNIIEVKAKVGQ 215
+HG+++ F +G V+++ K++ S + G+I +PG+II + G
Sbjct: 486 EHGQQSCFLWVDGVPEEVVVQHSELHDKIERSSVNNKIGPGDITVAIPGSIIAIHVSAGD 545
Query: 216 QVKKNDVLIVMSVMKTETLIHASADGV 242
+VK ++V+ MK ET I A A+GV
Sbjct: 546 EVKAGQAVLVIEAMKMETEIKAPANGV 572
>gnl|CDD|235540 PRK05641, PRK05641, putative acetyl-CoA carboxylase biotin carboxyl
carrier protein subunit; Validated.
Length = 153
Score = 45.6 bits (108), Expect = 3e-06
Identities = 24/52 (46%), Positives = 31/52 (59%), Gaps = 2/52 (3%)
Query: 195 AGE--IGAPMPGNIIEVKAKVGQQVKKNDVLIVMSVMKTETLIHASADGVHK 244
AGE + APMPG I+ + + GQQVK L+++ MK E I A DGV K
Sbjct: 82 AGENVVTAPMPGKILRILVREGQQVKVGQGLLILEAMKMENEIPAPKDGVVK 133
>gnl|CDD|235826 PRK06549, PRK06549, acetyl-CoA carboxylase biotin carboxyl carrier
protein subunit; Validated.
Length = 130
Score = 42.9 bits (101), Expect = 2e-05
Identities = 20/47 (42%), Positives = 29/47 (61%)
Query: 195 AGEIGAPMPGNIIEVKAKVGQQVKKNDVLIVMSVMKTETLIHASADG 241
A + +PMPG I++V VG QV +N L+++ MK E I AS+ G
Sbjct: 61 ADAMPSPMPGTILKVLVAVGDQVTENQPLLILEAMKMENEIVASSAG 107
>gnl|CDD|233980 TIGR02712, urea_carbox, urea carboxylase. Members of this family are
ATP-dependent urea carboxylase, including characterized
members from Oleomonas sagaranensis (alpha class
Proteobacterium) and yeasts such as Saccharomyces
cerevisiae. The allophanate hydrolase domain of the yeast
enzyme is not included in this model and is represented
by an adjacent gene in Oleomonas sagaranensis. The fusion
of urea carboxylase and allophanate hydrolase is
designated urea amidolyase. The enzyme from Oleomonas
sagaranensis was shown to be highly active on acetamide
and formamide as well as urea [Central intermediary
metabolism, Nitrogen metabolism].
Length = 1201
Score = 44.2 bits (105), Expect = 6e-05
Identities = 16/62 (25%), Positives = 29/62 (46%), Gaps = 1/62 (1%)
Query: 192 SDTAGEIGAPMPGNIIEVKAKVGQQVKKNDVLIVMSVMKTETLIHASADG-VHKVRSSNL 250
+ A ++ + GN +V +VG +V+ L+++ MK E + A G V K+
Sbjct: 1129 PEGAEQVESEYAGNFWKVLVEVGDRVEAGQPLVILEAMKMEMPVSAPVAGKVTKILCQPG 1188
Query: 251 DY 252
D
Sbjct: 1189 DM 1190
>gnl|CDD|205711 pfam13533, Biotin_lipoyl_2, Biotin-lipoyl like.
Length = 50
Score = 36.7 bits (86), Expect = 5e-04
Identities = 13/31 (41%), Positives = 17/31 (54%)
Query: 197 EIGAPMPGNIIEVKAKVGQQVKKNDVLIVMS 227
I P+ G ++ V K GQ VKK DVL +
Sbjct: 4 NIAPPVSGRVVAVNVKEGQSVKKGDVLFTLD 34
>gnl|CDD|133456 cd06663, Biotinyl_lipoyl_domains, Biotinyl_lipoyl_domains are
present in biotin-dependent carboxylases/decarboxylases,
the dihydrolipoyl acyltransferase component (E2) of
2-oxo acid dehydrogenases, and the H-protein of the
glycine cleavage system (GCS). These domains transport
CO2, acyl, or methylamine, respectively, between
components of the complex/protein via a biotinyl or
lipoyl group, which is covalently attached to a highly
conserved lysine residue.
Length = 73
Score = 35.5 bits (82), Expect = 0.003
Identities = 16/51 (31%), Positives = 23/51 (45%), Gaps = 6/51 (11%)
Query: 197 EIGAPMP------GNIIEVKAKVGQQVKKNDVLIVMSVMKTETLIHASADG 241
I P G +++ KVG +VKK DVL + MK + + A G
Sbjct: 1 TILIPDLAQHLGDGTVVKWLKKVGDKVKKGDVLAEIEAMKATSDVEAPKSG 51
>gnl|CDD|180306 PRK05889, PRK05889, putative acetyl-CoA carboxylase biotin carboxyl
carrier protein subunit; Provisional.
Length = 71
Score = 33.2 bits (76), Expect = 0.018
Identities = 18/55 (32%), Positives = 29/55 (52%), Gaps = 1/55 (1%)
Query: 195 AGEIGAPMPGNIIEVKAKVGQQVKKNDVLIVMSVMKTETLIHASADG-VHKVRSS 248
A ++ A + +++EV G Q+ K D L+++ MK E + A G V KV S
Sbjct: 2 AEDVRAEIVASVLEVVVNEGDQIGKGDTLVLLESMKMEIPVLAEVAGTVSKVSVS 56
>gnl|CDD|223582 COG0508, AceF, Pyruvate/2-oxoglutarate dehydrogenase complex,
dihydrolipoamide acyltransferase (E2) component, and
related enzymes [Energy production and conversion].
Length = 404
Score = 35.1 bits (81), Expect = 0.034
Identities = 15/39 (38%), Positives = 21/39 (53%)
Query: 204 GNIIEVKAKVGQQVKKNDVLIVMSVMKTETLIHASADGV 242
G I+E KVG +VK+ DVL+ + K + A GV
Sbjct: 17 GTIVEWLKKVGDKVKEGDVLVEVETDKATMEVPAPDAGV 55
>gnl|CDD|181304 PRK08225, PRK08225, acetyl-CoA carboxylase biotin carboxyl carrier
protein subunit; Validated.
Length = 70
Score = 31.7 bits (72), Expect = 0.063
Identities = 15/48 (31%), Positives = 26/48 (54%)
Query: 197 EIGAPMPGNIIEVKAKVGQQVKKNDVLIVMSVMKTETLIHASADGVHK 244
++ A M GN+ ++ KVG V++ ++++ MK E I A G K
Sbjct: 3 KVYASMAGNVWKIVVKVGDTVEEGQDVVILESMKMEIPIVAEEAGTVK 50
>gnl|CDD|133458 cd06849, lipoyl_domain, Lipoyl domain of the dihydrolipoyl
acyltransferase component (E2) of 2-oxo acid
dehydrogenases. 2-oxo acid dehydrogenase multienzyme
complexes, like pyruvate dehydrogenase (PDH),
2-oxoglutarate dehydrogenase (OGDH) and branched-chain
2-oxo acid dehydrogenase (BCDH), contain at least three
different enzymes, 2-oxo acid dehydrogenase (E1),
dihydrolipoyl acyltransferase (E2) and dihydrolipoamide
dehydrogenase (E3) and play a key role in redox
regulation. E2, the central component of the complex,
catalyzes the transfer of the acyl group of CoA from E1
to E3 via reductive acetylation of a lipoyl group
covalently attached to a lysine residue.
Length = 74
Score = 31.2 bits (72), Expect = 0.081
Identities = 14/39 (35%), Positives = 19/39 (48%)
Query: 204 GNIIEVKAKVGQQVKKNDVLIVMSVMKTETLIHASADGV 242
G I+E K G V++ DVL + K + A A GV
Sbjct: 15 GTIVEWLVKEGDSVEEGDVLAEVETDKATVEVEAPAAGV 53
Score = 25.8 bits (58), Expect = 7.5
Identities = 8/30 (26%), Positives = 15/30 (50%)
Query: 197 EIGAPMPGNIIEVKAKVGQQVKKNDVLIVM 226
E+ AP G + ++ + G V V+ V+
Sbjct: 45 EVEAPAAGVLAKILVEEGDTVPVGQVIAVI 74
>gnl|CDD|235777 PRK06302, PRK06302, acetyl-CoA carboxylase biotin carboxyl carrier
protein subunit; Validated.
Length = 155
Score = 32.1 bits (74), Expect = 0.14
Identities = 11/31 (35%), Positives = 15/31 (48%)
Query: 212 KVGQQVKKNDVLIVMSVMKTETLIHASADGV 242
+VG VK+ L ++ MK I A GV
Sbjct: 103 EVGDTVKEGQTLCIIEAMKVMNEIEADKSGV 133
>gnl|CDD|215974 pfam00529, HlyD, HlyD family secretion protein.
Length = 304
Score = 31.7 bits (72), Expect = 0.42
Identities = 10/30 (33%), Positives = 17/30 (56%)
Query: 197 EIGAPMPGNIIEVKAKVGQQVKKNDVLIVM 226
E+ + G +I + K G +VK DVL+ +
Sbjct: 4 EVQPQVSGIVIRILVKEGDRVKAGDVLVRL 33
>gnl|CDD|237001 PRK11856, PRK11856, branched-chain alpha-keto acid dehydrogenase
subunit E2; Reviewed.
Length = 411
Score = 31.3 bits (72), Expect = 0.54
Identities = 12/39 (30%), Positives = 16/39 (41%)
Query: 204 GNIIEVKAKVGQQVKKNDVLIVMSVMKTETLIHASADGV 242
G I+E KVG VK+ L + K I + G
Sbjct: 17 GEIVEWLVKVGDTVKEGQPLAEVETDKATVEIPSPVAGT 55
>gnl|CDD|182488 PRK10476, PRK10476, multidrug resistance protein MdtN; Provisional.
Length = 346
Score = 30.4 bits (69), Expect = 1.0
Identities = 11/34 (32%), Positives = 18/34 (52%), Gaps = 1/34 (2%)
Query: 190 ADSDTAGEIGAPMPGNIIEVKAKVGQQVKKNDVL 223
D+D + + + G I+E+ Q VKK D+L
Sbjct: 44 IDADVV-HVASEVGGRIVELAVTENQAVKKGDLL 76
>gnl|CDD|237000 PRK11855, PRK11855, dihydrolipoamide acetyltransferase; Reviewed.
Length = 547
Score = 30.2 bits (69), Expect = 1.3
Identities = 13/32 (40%), Positives = 21/32 (65%)
Query: 197 EIGAPMPGNIIEVKAKVGQQVKKNDVLIVMSV 228
EI +P+ G + E+K KVG +V +L+V+ V
Sbjct: 163 EIPSPVAGVVKEIKVKVGDKVSVGSLLVVIEV 194
Score = 28.3 bits (64), Expect = 5.1
Identities = 12/32 (37%), Positives = 17/32 (53%)
Query: 197 EIGAPMPGNIIEVKAKVGQQVKKNDVLIVMSV 228
EI +P G + E+K KVG V +L V+
Sbjct: 46 EIPSPAAGVVKEIKVKVGDTVSVGGLLAVIEA 77
>gnl|CDD|132750 cd06952, NR_LBD_TR2_like, The ligand binding domain of the orphan
nuclear receptors TR4 and TR2. The ligand binding
domain of the TR4 and TR2 (human testicular receptor 4
and 2): TR4 and TR2 are orphan nuclear receptors.
Several isoforms of TR4 and TR2 have been isolated in
various tissues. TR2 is abundantly expressed in the
androgen-sensitive prostate. TR4 transcripts are
expressed in many tissues, including central nervous
system, adrenal gland, spleen, thyroid gland, and
prostate. The expression of TR2 is negatively regulated
by androgen, retinoids, and radiation. The expression of
both mouse TR2 and TR4 is up-regulated by neurocytokine
ciliary neurotrophic factor (CNTF) in mouse. It has
shown that human TR2 binds to a wide spectrum of natural
hormone response elements (HREs) with distinct
affinities suggesting that TR2 may cross-talk with other
gene expression regulation systems. The genes responding
to TR2 or TR4 include genes that are regulated by
retinoic acid receptor, vitamin D receptor, peroxisome
proliferator-activated receptor. TR4/2 binds to HREs as
a dimer. Like other members of the nuclea r receptor
(NR) superfamily of ligand-activated transcription
factors, TR2-like receptors have a central well
conserved DNA binding domain (DBD), a variable
N-terminal domain, a flexible hinge and a C-terminal
ligand binding domain (LBD).
Length = 222
Score = 29.6 bits (67), Expect = 1.6
Identities = 19/50 (38%), Positives = 23/50 (46%), Gaps = 6/50 (12%)
Query: 84 KLQEKVLGSLKDHTLDRKPECDLMMEDEFGP-VDRLPTRIFLNGPNIGEE 132
KLQEK L L+D+ PE E + RLP L+ P I EE
Sbjct: 156 KLQEKALMELRDYVGKTYPE----DEYRLSKLLLRLPPLRSLS-PAITEE 200
>gnl|CDD|163506 TIGR03794, NHLM_micro_HlyD, NHLM bacteriocin system secretion
protein. Members of this protein family are homologs of
the HlyD membrane fusion protein of type I secretion
systems. Their occurrence in prokaryotic genomes is
associated with the occurrence of a novel class of
microcin (small bacteriocins) with a leader peptide
region related to nitrile hydratase. We designate the
class of bacteriocin as Nitrile Hydratase Leader
Microcin, or NHLM. This family, therefore, is designated
as NHLM bacteriocin system secretion protein. Some but
not all NHLM-class putative microcins belong to the TOMM
(thiazole/oxazole modified microcin) class as assessed
by the presence of the scaffolding protein and/or
cyclodehydratase in the same gene clusters [Transport
and binding proteins, Amino acids, peptides and amines,
Cellular processes, Biosynthesis of natural products].
Length = 421
Score = 29.8 bits (67), Expect = 1.8
Identities = 11/30 (36%), Positives = 18/30 (60%)
Query: 198 IGAPMPGNIIEVKAKVGQQVKKNDVLIVMS 227
I +P G +I++ +VG QVKK V+ +
Sbjct: 61 IQSPGSGVVIDLDVEVGDQVKKGQVVARLF 90
>gnl|CDD|223914 COG0845, AcrA, Membrane-fusion protein [Cell envelope biogenesis,
outer membrane].
Length = 372
Score = 29.3 bits (65), Expect = 2.4
Identities = 10/30 (33%), Positives = 17/30 (56%)
Query: 197 EIGAPMPGNIIEVKAKVGQQVKKNDVLIVM 226
E+ A + G + E+ K G +VKK +L +
Sbjct: 68 EVLARVAGIVAEILVKEGDRVKKGQLLARL 97
>gnl|CDD|180811 PRK07051, PRK07051, hypothetical protein; Validated.
Length = 80
Score = 27.3 bits (61), Expect = 2.7
Identities = 17/52 (32%), Positives = 24/52 (46%), Gaps = 7/52 (13%)
Query: 197 EIGAPMPGNIIE-------VKAKVGQQVKKNDVLIVMSVMKTETLIHASADG 241
EI +P+PG +VG V DV+ ++ VMK T + A A G
Sbjct: 5 EIVSPLPGTFYRRPSPDAPPYVEVGDAVAAGDVVGLIEVMKQFTEVEAEAAG 56
>gnl|CDD|240289 PTZ00144, PTZ00144, dihydrolipoamide succinyltransferase;
Provisional.
Length = 418
Score = 29.3 bits (66), Expect = 2.8
Identities = 22/97 (22%), Positives = 37/97 (38%), Gaps = 20/97 (20%)
Query: 158 GERTVFFLYNGQLRSVLIRDKNQAKK------------LKLRSKADSDTAGEIGAPMPGN 205
+ + G R +R A +K+ + DS + G +
Sbjct: 9 LNKPLLSSVKGMFRRFSLRKLQPACSAHFSKSYFSIKVIKVPTMGDSISEGTV------- 61
Query: 206 IIEVKAKVGQQVKKNDVLIVMSVMKTETLIHASADGV 242
+E K KVG VK+++V+ ++ K I A A GV
Sbjct: 62 -VEWKKKVGDYVKEDEVICIIETDKVSVDIRAPASGV 97
>gnl|CDD|184183 PRK13615, PRK13615, lipoprotein LpqB; Provisional.
Length = 557
Score = 28.8 bits (64), Expect = 3.7
Identities = 10/31 (32%), Positives = 11/31 (35%)
Query: 4 PADVKDEVDVPVNVSPPHTSAVPIRSTRGWV 34
PA V DE V P P G+V
Sbjct: 31 PATVTDESGVSYQPDGPQAGDGPDDVIAGFV 61
>gnl|CDD|143330 cd07706, IgV_TCR_delta, Immunoglobulin (Ig) variable (V) domain of
T-cell receptor (TCR) delta chain. IgV_TCR_delta:
immunoglobulin (Ig) variable (V) domain of the delta
chain of gamma/delta T-cell receptors (TCRs). TCRs
mediate antigen recognition by T lymphocytes, and are
heterodimers consisting of alpha and beta chains or
gamma and delta chains. Each chain contains a variable
(V) and a constant (C) region. The majority of T cells
contain alpha/beta TCRs but a small subset contain
gamma/delta TCRs. Alpha/beta TCRs recognize antigen as
peptide fragments presented by major histocompatibility
complex (MHC) molecules. Gamma/delta TCRs recognize
intact protein antigens; they recognize protein antigens
directly and without antigen processing, and MHC
independently of the bound peptide. Gamma/delta T cells
can also be stimulated by non-peptide antigens such as
small phosphate- or amine-containing compounds. The
variable domain of gamma/delta TCRs is responsible for
antigen recognition and is located at the N-terminus of
the receptor.
Length = 116
Score = 27.5 bits (61), Expect = 3.8
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 258 LQLSLNGVRKTDPLTFGRGTQI 279
L G TD L FG+GT++
Sbjct: 91 LSTLGMGSYDTDKLIFGKGTRV 112
>gnl|CDD|233366 TIGR01348, PDHac_trf_long, pyruvate dehydrogenase complex
dihydrolipoamide acetyltransferase, long form. This
model describes a subset of pyruvate dehydrogenase
complex dihydrolipoamide acetyltransferase specifically
close by both phylogenetic and per cent identity (UPGMA)
trees. Members of this set include two or three copies
of the lipoyl-binding domain. E. coli AceF is a member
of this model, while mitochondrial and some other
bacterial forms belong to a separate model [Energy
metabolism, Pyruvate dehydrogenase].
Length = 546
Score = 28.7 bits (64), Expect = 3.9
Identities = 17/48 (35%), Positives = 22/48 (45%)
Query: 197 EIGAPMPGNIIEVKAKVGQQVKKNDVLIVMSVMKTETLIHASADGVHK 244
+IG +IEV KVG V + LI + K + A A GV K
Sbjct: 123 DIGDIEKVTVIEVLVKVGDTVSADQSLITLESDKASMEVPAPASGVVK 170
Score = 28.7 bits (64), Expect = 4.5
Identities = 16/39 (41%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 191 DSDTAG-EIGAPMPGNIIEVKAKVGQQVKKNDVLIVMSV 228
+SD A E+ AP G + VK KVG V D+++ +SV
Sbjct: 153 ESDKASMEVPAPASGVVKSVKVKVGDSVPTGDLILTLSV 191
>gnl|CDD|235289 PRK04350, PRK04350, thymidine phosphorylase; Provisional.
Length = 490
Score = 28.6 bits (65), Expect = 4.0
Identities = 17/44 (38%), Positives = 22/44 (50%), Gaps = 10/44 (22%)
Query: 199 GAPM-PGNIIEVKAKVGQQVKKNDVLIVMSVMKTETLIHASADG 241
GAP G I++ KVG +VKK D L IHA ++G
Sbjct: 432 GAPKDKGAGIDLHVKVGDKVKKGDPLYT---------IHAESEG 466
>gnl|CDD|225101 COG2190, NagE, Phosphotransferase system IIA components
[Carbohydrate transport and metabolism].
Length = 156
Score = 27.9 bits (63), Expect = 4.3
Identities = 8/23 (34%), Positives = 11/23 (47%)
Query: 202 MPGNIIEVKAKVGQQVKKNDVLI 224
+ G E K G +VK D L+
Sbjct: 84 LNGEGFESLVKEGDKVKAGDPLL 106
>gnl|CDD|233962 TIGR02645, ARCH_P_rylase, putative thymidine phosphorylase.
Members of this family are closely related to
characterized examples of thymidine phosphorylase (EC
2.4.2.4) and pyrimidine nucleoside phosphorylase (RC
2.4.2.2). Most examples are found in the archaea, but
other examples in Legionella pneumophila str. Paris and
Rhodopseudomonas palustris CGA009.
Length = 493
Score = 28.6 bits (64), Expect = 4.8
Identities = 18/51 (35%), Positives = 23/51 (45%), Gaps = 10/51 (19%)
Query: 195 AGEIGAPM-PGNIIEVKAKVGQQVKKNDVLIVMSVMKTETLIHASADGVHK 244
A GAP G +E+ KVG QVKK D L I+A ++G
Sbjct: 436 ARLAGAPNDKGAGVELHVKVGDQVKKGDPLYT---------IYAESEGELD 477
>gnl|CDD|164861 PHA01630, PHA01630, putative group 1 glycosyl transferase.
Length = 331
Score = 28.2 bits (63), Expect = 5.1
Identities = 16/84 (19%), Positives = 30/84 (35%), Gaps = 16/84 (19%)
Query: 23 SAVPIRSTRGWVWIGYIEECLRQLLIKAKDVMENADKIIFPKS---VSAFFQGSIGEPYQ 79
+ + T W ++ L IK+ ++ + V F I + YQ
Sbjct: 232 LGLDVVVTEKGAWSEWVLSNLDVYWIKS-----GRKPKLWYTNPIHVGYFLDPDIEDAYQ 286
Query: 80 GFPKKLQEKVLGSLKDHTLDRKPE 103
K+L +L + T ++K E
Sbjct: 287 --------KLLEALANWTPEKKKE 302
>gnl|CDD|131384 TIGR02331, rib_alpha, Rib/alpha/Esp surface antigen repeat.
Sequences in this family are tandem repeats of about 79
amino acids, present in up to 14 copies in a protein
and highly identical, even at the DNA level, within
each protein. Sequences with these repeats are found in
the Rib and alpha surface antigens of group B
Streptococcus, Esp of Enterococcus faecalis, and
related proteins of Lactobacillus. The repeat lacks Cys
residues. Most members of this protein family also have
the cell wall anchor motif LPXTG shared by many
staphyloccal and streptococcal surface antigens.
Length = 80
Score = 26.4 bits (58), Expect = 5.5
Identities = 11/21 (52%), Positives = 13/21 (61%)
Query: 4 PADVKDEVDVPVNVSPPHTSA 24
P KD V V V+V+PP T A
Sbjct: 53 PDGTKDTVPVTVHVTPPRTDA 73
>gnl|CDD|199871 cd06251, M14_ASTE_ASPA_like_1, Peptidase M14 Succinylglutamate
desuccinylase (ASTE)/aspartoacylase (ASPA)-like;
uncharacterized subgroup. A functionally
uncharacterized subgroup of the Succinylglutamate
desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily
which is part of the M14 family of
metallocarboxypeptidases. ASTE catalyzes the fifth and
last step in arginine catabolism by the arginine
succinyltransferase pathway, and aspartoacylase (ASPA,
also known as aminoacylase 2, and ACY-2; EC:3.5.1.15)
cleaves N-acetyl L-aspartic acid (NAA) into aspartate
and acetate. NAA is abundant in the brain, and
hydrolysis of NAA by ASPA may help maintain white
matter. ASPA is an NAA scavenger in other tissues.
Mutations in the gene encoding ASPA cause Canavan
disease (CD), a fatal progressive neurodegenerative
disorder involving dysmyelination and spongiform
degeneration of white matter in children. This enzyme
binds zinc which is necessary for activity. Measurement
of elevated NAA levels in urine is used in the diagnosis
of CD.
Length = 287
Score = 27.9 bits (63), Expect = 6.8
Identities = 12/47 (25%), Positives = 24/47 (51%), Gaps = 3/47 (6%)
Query: 198 IGAPMPGNIIEVKAKVGQQVKKNDVLIVMS--VMKTETLIHASADGV 242
+ AP G ++ K+G +V+K +L ++ + E + A DG+
Sbjct: 222 VRAPRGG-LLRSLVKLGDRVEKGQLLATITDPFGEEEAEVKAPFDGI 267
>gnl|CDD|236999 PRK11854, aceF, pyruvate dehydrogenase dihydrolipoyltransacetylase;
Validated.
Length = 633
Score = 28.0 bits (63), Expect = 7.3
Identities = 11/32 (34%), Positives = 18/32 (56%)
Query: 197 EIGAPMPGNIIEVKAKVGQQVKKNDVLIVMSV 228
E+ AP G + E+K VG +VK +++ V
Sbjct: 249 EVPAPFAGTVKEIKVNVGDKVKTGSLIMRFEV 280
>gnl|CDD|211332 cd02558, PSRA_1, Pseudouridine synthase, a subgroup of the RluA
family. This group is comprised of bacterial proteins
assigned to the RluA family of pseudouridine synthases.
Pseudouridine synthases catalyze the isomerization of
specific uridines in an RNA molecule to pseudouridines
(5-ribosyluracil, psi). No cofactors are required. The
RluA family is comprised of proteins related to
Escherichia coli RluA.
Length = 246
Score = 27.6 bits (62), Expect = 7.4
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 251 DYNFMRPLQLSLNGVRKTDPLT 272
+F RPLQL + TDPLT
Sbjct: 213 PDDFSRPLQLLAKELEFTDPLT 234
>gnl|CDD|233228 TIGR00998, 8a0101, efflux pump membrane protein (multidrug
resistance protein A). [Transport and binding proteins,
Other].
Length = 334
Score = 27.8 bits (62), Expect = 7.8
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 204 GNIIEVKAKVGQQVKKNDVLI 224
G++IEV VK+ DVL+
Sbjct: 51 GSVIEVNVDDTDYVKQGDVLV 71
>gnl|CDD|222128 pfam13437, HlyD_3, HlyD family secretion protein. This is a family
of largely bacterial haemolysin translocator HlyD
proteins.
Length = 102
Score = 26.6 bits (59), Expect = 7.8
Identities = 10/28 (35%), Positives = 14/28 (50%)
Query: 197 EIGAPMPGNIIEVKAKVGQQVKKNDVLI 224
I AP+ G + E+ + GQ V D L
Sbjct: 1 VIRAPIDGVVAELDVEEGQVVAAGDPLA 28
>gnl|CDD|234769 PRK00451, PRK00451, glycine dehydrogenase subunit 1; Validated.
Length = 447
Score = 27.8 bits (63), Expect = 8.4
Identities = 10/47 (21%), Positives = 19/47 (40%), Gaps = 5/47 (10%)
Query: 185 KLRSKADSDTAGEIGAPMP---GNIIEVKAKVGQQVKKNDVLIVMSV 228
L + D DTA + P G I +++ + + L ++ V
Sbjct: 196 ALEAAVDDDTAAVV-VQYPNFFGVIEDLEE-IAEIAHAGGALFIVGV 240
>gnl|CDD|240465 cd12885, SPRY_RanBP_like, SPRY domain in Ran binding proteins,
SSH4, HECT E3 and SPRYD3. This family includes SPRY
domains found in Ran binding proteins (RBP or RanBPM) 9
and 10, SSH4 (suppressor of SHR3 null mutation protein
4), SPRY domain-containing protein 3 (SPRYD3) as well as
HECT, a C-terminal catalytic domain of a subclass of
ubiquitin-protein ligase (E3). RanBP9 and RanBP10 act as
androgen receptor (AR) coactivators. Both consist of the
N-terminal proline- and glutamine-rich regions, the SPRY
domain, and LisH-CTLH and CRA motifs. The SPRY domain in
SSH4 may be involved in cargo recognition, either
directly or by combination with other adaptors, possibly
leading to a higher selectivity. SPRYD3 is highly
expressed in most tissues in humans, possibly involved
in important cellular processes. HECT E3 mediates the
direct transfer of ubiquitin from E2 to substrate.
Length = 132
Score = 26.9 bits (60), Expect = 8.4
Identities = 12/51 (23%), Positives = 16/51 (31%), Gaps = 14/51 (27%)
Query: 123 FLNGPNIGEEFSCEFKTGDTA---YVTTLSISERLNDHGERTVFFLYNGQL 170
G GE + F TGD + +FF NG+L
Sbjct: 62 VYLGGGEGENYGPPFGTGDVVGCGI-----------NFKTGEIFFTKNGEL 101
>gnl|CDD|213288 cd05921, FCS, Feruloyl-CoA synthetase (FCS). Feruloyl-CoA
synthetase is an essential enzyme in the feruloyl acid
degradation pathway and enables some proteobacteria to
grow on media containing feruloyl acid as the sole
carbon source. It catalyzes the transfer of CoA to the
carboxyl group of ferulic acid, which then forms
feruloyl-CoA in the presence of ATP and Mg2. The
resulting feruloyl-CoA is further degraded to vanillin
and acetyl-CoA. Feruloyl-CoA synthetase (FCS) is a
subfamily of the adenylate-forming enzymes superfamily.
Length = 559
Score = 27.6 bits (62), Expect = 8.8
Identities = 9/20 (45%), Positives = 12/20 (60%), Gaps = 2/20 (10%)
Query: 191 DSDTAGEIGAPMPGNIIEVK 210
+D +G IG P PG E+K
Sbjct: 342 PTDRSGVIGLPAPG--TELK 359
>gnl|CDD|237039 PRK12288, PRK12288, GTPase RsgA; Reviewed.
Length = 347
Score = 27.5 bits (62), Expect = 9.0
Identities = 13/50 (26%), Positives = 20/50 (40%), Gaps = 6/50 (12%)
Query: 168 GQLRSVLIRDKNQAKKLKLRSKADSDTAGEIGAPMPGNIIEVKAKVGQQV 217
GQ R V + N K+LK + +G G +I ++ GQ
Sbjct: 9 GQQRRV---EANHQKRLKTSKEKPELDDSLLGEEQEGIVI---SRFGQHA 52
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
0.318 0.135 0.397
Gapped
Lambda K H
0.267 0.0842 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,277,487
Number of extensions: 1339643
Number of successful extensions: 1189
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1183
Number of HSP's successfully gapped: 74
Length of query: 288
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 192
Effective length of database: 6,679,618
Effective search space: 1282486656
Effective search space used: 1282486656
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 58 (25.9 bits)