RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780820|ref|YP_003065233.1| acetyl-CoA carboxylase subunit
beta [Candidatus Liberibacter asiaticus str. psy62]
(284 letters)
>gnl|CDD|180184 PRK05654, PRK05654, acetyl-CoA carboxylase subunit beta; Validated.
Length = 292
Score = 478 bits (1232), Expect = e-136
Identities = 157/282 (55%), Positives = 204/282 (72%), Gaps = 1/282 (0%)
Query: 1 MNWITNFVRPRINSVFGRRA-IPENLWVKCPETGAMVYHKDLKENQWVISSSDFHMKIPA 59
M+W F+ +I S R+A +PE LW KCP G ++Y K+L+ N V HM+I A
Sbjct: 1 MSWFDKFLPKKIKSSLPRKAEVPEGLWTKCPSCGQVLYRKELEANLNVCPKCGHHMRISA 60
Query: 60 KERLKFLFDNAKYCLLDQPQVCQDPLKFRDNKKYIDRLKENRSKTGLIDSIVSAVGNVRD 119
+ERL L D + LD +DPLKFRD+KKY DRLK + KTGL D++V+ G +
Sbjct: 61 RERLDLLLDEGSFVELDAELEPKDPLKFRDSKKYKDRLKAAQKKTGLKDAVVTGKGTIEG 120
Query: 120 FKLVAVVHEFSFIGGSIGIAAGEAIVKSCERAIAEKCPLVMFTASGGARMQEGILSLMQL 179
+V V +FSF+GGS+G GE IV++ ERAI EKCPLV+F+ASGGARMQEG+LSLMQ+
Sbjct: 121 MPVVLAVMDFSFMGGSMGSVVGEKIVRAVERAIEEKCPLVIFSASGGARMQEGLLSLMQM 180
Query: 180 PRTTIAINMLKDAGLPYIVVLTNPTTGGVTASYAMLGDIHLAEPGAEIGFAGRRVIEQTV 239
+T+ A+ L +AGLPYI VLT+PTTGGV+AS+AMLGDI +AEP A IGFAG RVIEQTV
Sbjct: 181 AKTSAALKRLSEAGLPYISVLTDPTTGGVSASFAMLGDIIIAEPKALIGFAGPRVIEQTV 240
Query: 240 REKLPDGFQRSEYLVEHGMIDRIVHRHDIPEVVSSLCKILTK 281
REKLP+GFQR+E+L+EHG ID IVHR ++ + ++SL + TK
Sbjct: 241 REKLPEGFQRAEFLLEHGAIDMIVHRRELRDTLASLLALHTK 282
>gnl|CDD|129606 TIGR00515, accD, acetyl-CoA carboxylase, carboxyl transferase, beta
subunit. The enzyme acetyl-CoA carboxylase contains a
biotin carboxyl carrier protein or domain, a biotin
carboxylase, and a carboxyl transferase. This model
represents the beta chain of the carboxyl transferase
for cases in which the architecture of the protein is as
in E. coli, in which the carboxyltransferase portion
consists of two non-identical subnits, alpha and beta.
Length = 285
Score = 329 bits (844), Expect = 7e-91
Identities = 129/279 (46%), Positives = 192/279 (68%), Gaps = 3/279 (1%)
Query: 2 NWITNFVRPRINSVFGRRAIPENLWVKCPETGAMVYHKDLKENQWVISSSDFHMKIPAKE 61
+ + + + +PE +W KCP+ G ++Y K+L+ N V D HM++ A+E
Sbjct: 5 DRFKSKKKITSTR---KAEVPEGVWTKCPKCGQVLYTKELERNLEVCPKCDHHMRMDARE 61
Query: 62 RLKFLFDNAKYCLLDQPQVCQDPLKFRDNKKYIDRLKENRSKTGLIDSIVSAVGNVRDFK 121
R++ L D + + +DPLKF+D+KKY DR+ + + +TG D++V+ G +
Sbjct: 62 RIESLLDEGSFEEFNSHLEPKDPLKFKDSKKYKDRIAKAQKETGEKDAVVTGKGTLYGMP 121
Query: 122 LVAVVHEFSFIGGSIGIAAGEAIVKSCERAIAEKCPLVMFTASGGARMQEGILSLMQLPR 181
+V V +F+F+GGS+G GE V++ E+A+ + CPL++F+ASGGARMQE +LSLMQ+ +
Sbjct: 122 IVVAVFDFAFMGGSMGSVVGEKFVRAIEKALEDNCPLIIFSASGGARMQEALLSLMQMAK 181
Query: 182 TTIAINMLKDAGLPYIVVLTNPTTGGVTASYAMLGDIHLAEPGAEIGFAGRRVIEQTVRE 241
T+ A+ + + GLPYI VLT+PTTGGV+AS+AMLGD+++AEP A IGFAG RVIEQTVRE
Sbjct: 182 TSAALAKMSERGLPYISVLTDPTTGGVSASFAMLGDLNIAEPKALIGFAGPRVIEQTVRE 241
Query: 242 KLPDGFQRSEYLVEHGMIDRIVHRHDIPEVVSSLCKILT 280
KLP+GFQ SE+L+EHG ID IVHR ++ + ++SL L
Sbjct: 242 KLPEGFQTSEFLLEHGAIDMIVHRPEMKKTLASLLAKLQ 280
>gnl|CDD|130187 TIGR01117, mmdA, methylmalonyl-CoA decarboxylase alpha subunit.
This model describes methymalonyl-CoA decarboxylase
aplha subunit in archaea and bacteria. Metylmalonyl-CoA
decarboxylase Na+ pump is a representative of a class of
Na+ transport decarboxylases that couples the energy
derived by decarboxylation of carboxylic acid substrates
to drive the extrusion of Na+ ion across the membrane.
Length = 512
Score = 56.8 bits (137), Expect = 6e-09
Identities = 53/193 (27%), Positives = 88/193 (45%), Gaps = 23/193 (11%)
Query: 56 KIPAKERLKFLFDNAKYCLLDQPQVCQDPLKFRDNKKYIDRLKENRSKTGLIDSIVSAVG 115
K+ A+ERL LFD + +D V F +KK + + +V+ G
Sbjct: 30 KMTARERLALLFDPGSFVEID-QFVKHRCTNFGMDKKELPA-----------EGVVTGYG 77
Query: 116 NVRDFKLVAV-VHEFSFIGGSIGIAAGEAIVKSCERAIAEKCPLVMFTASGGARMQEGIL 174
+ D +LV +F+ +GGS+G IVK + A+ P+V SGGAR+QE +
Sbjct: 78 TI-DGRLVYAFAQDFTVMGGSLGEMHAAKIVKIMDLAMKMGAPVVGLNDSGGARIQEAVD 136
Query: 175 SLMQ----LPRTTIAINMLKDAGLPYIVVLTNPTTGGVTASYAMLGDIHLAEPGAEIGFA 230
+L R TIA + +P I + P GG S A+ I++ + +++
Sbjct: 137 ALKGYGDIFYRNTIASGV-----VPQISAIMGPCAGGAVYSPALTDFIYMVDNTSQMFIT 191
Query: 231 GRRVIEQTVREKL 243
G +VI+ E++
Sbjct: 192 GPQVIKTVTGEEV 204
>gnl|CDD|132177 TIGR03133, malonate_beta, malonate decarboxylase, beta subunit.
Members of this protein family are the beta subunit of
malonate decarboxylase. Malonate decarboxylase may be a
soluble enzyme, or linked to membrane subunits and
active as a sodium pump. In the malonate decarboxylase
complex, the beta subunit appears to act as a
malonyl-CoA decarboxylase.
Length = 274
Score = 43.1 bits (102), Expect = 7e-05
Identities = 38/137 (27%), Positives = 57/137 (41%), Gaps = 9/137 (6%)
Query: 108 DSIVSAVGNVRDFKLVAVVHEFSFIGGSIGIAAGEAIVKSCERAIAEKC-----PLVMFT 162
D +V G + +V E F GGS+G G IV + AI + +V+
Sbjct: 47 DGVVVGRGTIDGKPVVVAAQEGRFQGGSVGEVHGAKIVGALRLAIEDNRKGQPTAVVLLL 106
Query: 163 ASGGARMQEGILSLMQLPRTTIAINMLKDAGLPYIVVLTNPTT--GGVTASYAMLGDIHL 220
+GG R+QE L+ + AI + A P I V+ GG+ + A L +
Sbjct: 107 DTGGVRLQEANAGLIAIAEIMRAILDARAAV-PVIGVIGGRVGCFGGMGIA-AGLCSYLI 164
Query: 221 AEPGAEIGFAGRRVIEQ 237
+G +G VIEQ
Sbjct: 165 MTEEGRLGLSGPEVIEQ 181
>gnl|CDD|180869 PRK07189, PRK07189, malonate decarboxylase subunit beta; Reviewed.
Length = 301
Score = 34.5 bits (80), Expect = 0.035
Identities = 20/70 (28%), Positives = 32/70 (45%), Gaps = 7/70 (10%)
Query: 108 DSIVSAVGNVRDFKLVAVVHEFSFIGGSIGIAAGEAIVKSCERAIAEK------CPLVMF 161
D +V G + +V E F+GGS+G G + + E A + L++F
Sbjct: 56 DGVVVGKGTLDGRPVVVAAQEGRFMGGSVGEVHGAKLAGALELAAEDNRNGIPTAVLLLF 115
Query: 162 TASGGARMQE 171
+GG R+QE
Sbjct: 116 E-TGGVRLQE 124
>gnl|CDD|148509 pfam06934, CTI, Fatty acid cis/trans isomerase (CTI). This family
consists of several fatty acid cis/trans isomerase
proteins which appear to be found exclusively in
bacteria of the orders Vibrionales and Pseudomonadales.
Cis/trans isomerase (CTI) catalyses the cis-trans
isomerisation of esterified fatty acids in
phospholipids, mainly cis-oleic acid (C(16:1,9)) and
cis-vaccenic acid (C(18:1,11)), in response to solvents.
The CTI protein has been shown to be involved in solvent
resistance in Pseudomonas putida.
Length = 688
Score = 29.1 bits (66), Expect = 1.4
Identities = 9/16 (56%), Positives = 13/16 (81%)
Query: 57 IPAKERLKFLFDNAKY 72
IPA+ R +F+ DNA+Y
Sbjct: 263 IPARARYQFMLDNAQY 278
>gnl|CDD|179176 PRK00943, PRK00943, selenophosphate synthetase; Provisional.
Length = 347
Score = 29.0 bits (66), Expect = 1.6
Identities = 16/39 (41%), Positives = 21/39 (53%), Gaps = 5/39 (12%)
Query: 21 IPENLWVKCPETG--AMVYHKDLKENQWVISSSDFHMKI 57
+ NL V ET A VY DL + +IS++DF M I
Sbjct: 38 VDPNLLVG-NETRDDAAVY--DLNDGTGIISTTDFFMPI 73
>gnl|CDD|182817 PRK10895, PRK10895, lipopolysaccharide ABC transporter ATP-binding
protein; Provisional.
Length = 241
Score = 28.7 bits (64), Expect = 1.7
Identities = 12/31 (38%), Positives = 19/31 (61%)
Query: 69 NAKYCLLDQPQVCQDPLKFRDNKKYIDRLKE 99
N K+ LLD+P DP+ D K+ I+ L++
Sbjct: 155 NPKFILLDEPFAGVDPISVIDIKRIIEHLRD 185
>gnl|CDD|182156 PRK09939, PRK09939, putative oxidoreductase; Provisional.
Length = 759
Score = 28.9 bits (64), Expect = 1.7
Identities = 24/83 (28%), Positives = 38/83 (45%), Gaps = 11/83 (13%)
Query: 127 HEFSFIG--GSIGIAAGEAIVKSCERAIAEKCPLVMFTA----SGGARMQEGILSLMQLP 180
HE + +G SIG+ G +++ EKC LV+ + RM + +L++
Sbjct: 183 HEPTSVGLAASIGVGKGTVLLED-----FEKCDLVICIGHNPGTNHPRMLTSLRALVKRG 237
Query: 181 RTTIAINMLKDAGLPYIVVLTNP 203
IAIN L++ GL NP
Sbjct: 238 AKMIAINPLQERGLERFTAPQNP 260
>gnl|CDD|166227 PLN02586, PLN02586, probable cinnamyl alcohol dehydrogenase.
Length = 360
Score = 28.3 bits (63), Expect = 2.1
Identities = 35/136 (25%), Positives = 55/136 (40%), Gaps = 29/136 (21%)
Query: 107 IDSIVSAVG-NVRDFKLVAVVHEFSFIGGSIGIAAGEAIVKSCE---RAIAEKCPLVMFT 162
I IV+ +G NV+ FK G +G+ KSCE + + CP ++FT
Sbjct: 74 IVGIVTKLGKNVKKFKE----------GDRVGVGVIVGSCKSCESCDQDLENYCPKMIFT 123
Query: 163 ----ASGGARMQEG---ILSLMQLPRTTIAINMLKDAGLPYIVVLTNPTTGGVTASYAML 215
G + G ++ + Q N+ DAG P + G+T Y+ +
Sbjct: 124 YNSIGHDGTKNYGGYSDMIVVDQHFVLRFPDNLPLDAGAPLLC-------AGITV-YSPM 175
Query: 216 GDIHLAEPGAEIGFAG 231
+ EPG +G AG
Sbjct: 176 KYYGMTEPGKHLGVAG 191
>gnl|CDD|140204 PTZ00176, PTZ00176, erythrocyte membrane protein 1 (PfEMP1);
Provisional.
Length = 1317
Score = 28.1 bits (62), Expect = 3.1
Identities = 11/34 (32%), Positives = 18/34 (52%)
Query: 86 KFRDNKKYIDRLKENRSKTGLIDSIVSAVGNVRD 119
K + KY D+LK + + D + S+ G+VR
Sbjct: 29 KRENESKYTDKLKGSLWEARFSDGLSSSFGDVRS 62
>gnl|CDD|179035 PRK00454, engB, GTP-binding protein YsxC; Reviewed.
Length = 196
Score = 27.8 bits (63), Expect = 3.6
Identities = 8/16 (50%), Positives = 12/16 (75%)
Query: 186 INMLKDAGLPYIVVLT 201
I LK+ G+P ++VLT
Sbjct: 128 IEWLKEYGIPVLIVLT 143
>gnl|CDD|179095 PRK00719, PRK00719, alkanesulfonate monooxygenase; Provisional.
Length = 378
Score = 27.6 bits (62), Expect = 3.7
Identities = 10/24 (41%), Positives = 16/24 (66%), Gaps = 4/24 (16%)
Query: 43 ENQWVISSSDFHMKIPAKERLKFL 66
E+ W++++S IP +RLKFL
Sbjct: 54 EDAWLVAAS----LIPVTQRLKFL 73
>gnl|CDD|132588 TIGR03549, TIGR03549, conserved hypothetical protein TIGR03549.
This family consists of remarkably well-conserved
proteins from gamma and beta Proteobacteria, heavily
skewed towards organisms of marine environments. This
family has an OsmC-like N-terminal domain. It shares a
central domain, modeled by pfam02624 and TIGR00702, with
other families of smaller proteins. The function is
unknown. Fifteen of the first sixteen members of this
family are from selenouridine-positive genomes, but this
correlation may be fortuitous.
Length = 718
Score = 27.5 bits (61), Expect = 4.7
Identities = 15/30 (50%), Positives = 19/30 (63%), Gaps = 5/30 (16%)
Query: 188 MLKDAGL----PYI-VVLTNPTTGGVTASY 212
++KDA L P + V L NP TGGV AS+
Sbjct: 390 LVKDASLGGQFPVMCVTLMNPRTGGVFASF 419
>gnl|CDD|130828 TIGR01767, MTRK, 5-methylthioribose kinase. This enzyme is
involved in the methionine salvage pathway in certain
bacteria.
Length = 370
Score = 27.2 bits (60), Expect = 5.6
Identities = 23/105 (21%), Positives = 39/105 (37%), Gaps = 22/105 (20%)
Query: 50 SSDFHMKIPAKERLKFLFDNAKYCLLDQPQVCQDPLKFRDNKKYIDRLKENRSKTGLIDS 109
SSD+ ++ K+ L F N + C + + V DP D + + L
Sbjct: 116 SSDYALEPKVKKALVAQFTNPELCDITERLVFTDPYFDHDTNDFEEEL----------RP 165
Query: 110 IVSAVGNVRDFKLVAVVHEFSFIG------------GSIGIAAGE 142
V+ + N K+ A + SF+ GSI ++ E
Sbjct: 166 FVAKLRNDDSLKIEAAKLKHSFLASAETLLHGDLHSGSIFVSEHE 210
>gnl|CDD|180991 PRK07475, PRK07475, hypothetical protein; Provisional.
Length = 245
Score = 26.8 bits (60), Expect = 5.7
Identities = 30/143 (20%), Positives = 47/143 (32%), Gaps = 39/143 (27%)
Query: 143 AIVKSC------ERAIAEKCPLVMFTASGGARMQEGILSLMQLPRTTIAINMLKDAGLPY 196
AI SC +R +A + + T+S L+Q+P L A LP
Sbjct: 81 AITTSCGFLALFQRELAAALGVPVATSS-----------LLQVP--------LIQALLP- 120
Query: 197 IVVLTNPTTGGVTASYAMLGDIHLAEPGAEIGFAGRRVIEQTVREKLPDG--FQRSEYLV 254
G +TA + L HL G L +G F+R+ L
Sbjct: 121 ----AGQKVGILTADASSLTPAHLLAVGVPPD------TSSLPIAGLEEGGEFRRN-ILE 169
Query: 255 EHGMIDRIVHRHDIPEVVSSLCK 277
G +D ++ +L +
Sbjct: 170 NRGELDNEAAEQEVVAAARALLE 192
>gnl|CDD|129576 TIGR00485, EF-Tu, translation elongation factor TU. This alignment
models orthologs of translation elongation factor EF-Tu
in bacteria, mitochondria, and chloroplasts, one of
several GTP-binding translation factors found by the
more general pfam model GTP_EFTU. The eukaryotic
conterpart, eukaryotic translation elongation factor 1
(eEF-1 alpha), is excluded from this model. EF-Tu is one
of the most abundant proteins in bacteria, as well as
one of the most highly conserved, and in a number of
species the gene is duplicated with identical function.
When bound to GTP, EF-Tu can form a complex with any
(correctly) aminoacylated tRNA except those for
initiation and for selenocysteine, in which case EF-Tu
is replaced by other factors. Transfer RNA is carried to
the ribosome in these complexes for protein translation.
Length = 394
Score = 26.7 bits (59), Expect = 6.5
Identities = 15/43 (34%), Positives = 23/43 (53%), Gaps = 4/43 (9%)
Query: 164 SGGARMQEGILSLMQ----LPRTTIAINMLKDAGLPYIVVLTN 202
+G A+M IL + +P+T I + + G+PYIVV N
Sbjct: 94 TGAAQMDGAILVVSATDGPMPQTREHILLARQVGVPYIVVFLN 136
Database: CddB
Posted date: Feb 4, 2011 9:54 PM
Number of letters in database: 5,994,473
Number of sequences in database: 21,608
Lambda K H
0.322 0.138 0.411
Gapped
Lambda K H
0.267 0.0686 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 4,746,941
Number of extensions: 309355
Number of successful extensions: 694
Number of sequences better than 10.0: 1
Number of HSP's gapped: 691
Number of HSP's successfully gapped: 24
Length of query: 284
Length of database: 5,994,473
Length adjustment: 92
Effective length of query: 192
Effective length of database: 4,006,537
Effective search space: 769255104
Effective search space used: 769255104
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 57 (25.8 bits)