RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780300|ref|YP_003064713.1| aspartate carbamoyltransferase
catalytic subunit [Candidatus Liberibacter asiaticus str. psy62]
(316 letters)
>gnl|CDD|30886 COG0540, PyrB, Aspartate carbamoyltransferase, catalytic chain
[Nucleotide transport and metabolism].
Length = 316
Score = 332 bits (854), Expect = 5e-92
Identities = 134/316 (42%), Positives = 189/316 (59%), Gaps = 11/316 (3%)
Query: 3 SFPLYNFVTVKDLSMQDVNYLLDRANEYFQKKSHFNPSTTRLQGLTQINLFLETSTRTQT 62
F + + ++++DLS +++ LLD A+E F+ + L+G NLF E STRT+
Sbjct: 4 PFKMRHLISIEDLSREELELLLDTADE-FKAVARAEKKLDLLKGKVVANLFFEPSTRTRL 62
Query: 63 SFEVAGKLLGVHVININTKNSAMKKGENIADTIATLNALRPNIIVIRHPYSGAVNSLMHK 122
SFE A K LG V+N + S+ KKGE +ADTI TL+A + IVIRHP GA L
Sbjct: 63 SFETAMKRLGADVVNFSDSESSSKKGETLADTIRTLSAYGVDAIVIRHPEEGAARLLAEF 122
Query: 123 IKGPSIINAGDGTHEHPSQALLDAFAIRHFKGKISNLHIAICGDILHSRVARSDIMLLNT 182
+INAGDG+H+HP+QALLD + IR G++ L IAI GD+ HSRVA S+I L
Sbjct: 123 SGVNPVINAGDGSHQHPTQALLDLYTIREEFGRLDGLKIAIVGDLKHSRVAHSNIQALKR 182
Query: 183 MGARIRVIAPITLLPKDI------SNMGVEVFHDM-QKGLKNVDVIMILRMQQERIPRSL 235
GA + +++P TLLP + GV V HD ++ ++ DV+ +LR+Q+ER
Sbjct: 183 FGAEVYLVSPETLLPPEYILEELEEKGGVVVEHDSDEEVIEEADVLYMLRVQKERFNDPE 242
Query: 236 IPS-IREYKHVYSLDEKKLKYAKKDALVMHPGPINRNYEISSSVADGSQSIIQYQVEMGV 294
S ++EY +Y L + + AK DA+VMHP P+NR EI+S V D QS QV+ GV
Sbjct: 243 EYSKVKEYYKLYGLTLE--RLAKPDAIVMHPLPVNRVVEIASEVDDTPQSRYFQQVKNGV 300
Query: 295 AVRMAIIKELLENQNK 310
AVRMA+++ LL +
Sbjct: 301 AVRMALLELLLGGREA 316
>gnl|CDD|143948 pfam00185, OTCace, Aspartate/ornithine carbamoyltransferase,
Asp/Orn binding domain.
Length = 155
Score = 164 bits (418), Expect = 2e-41
Identities = 58/160 (36%), Positives = 83/160 (51%), Gaps = 17/160 (10%)
Query: 157 SNLHIAICGDILHSRVARSDIMLLNTMGARIRVIAPITLLP------------KDISNMG 204
L +AI GD H+RVA S I+ L G + ++AP L P +
Sbjct: 1 DGLKVAIVGDGKHNRVAHSLILALAKFGMEVVLVAPKGLPPDPELVDEAKKNALKSGGIS 60
Query: 205 VEVFHDMQKGLKNVDVIMILRMQQERIPRSLIPSIREYKHVYSLDEKKLKYAKKDALVMH 264
+ V D+++ LK DV+ R Q+ER R + E+K Y + + LK AK DA+VMH
Sbjct: 61 ITVTDDLEEALKGADVVYTDRWQKEREER-----LEEFKPDYQVTAELLKKAKPDAIVMH 115
Query: 265 PGPINRNYEISSSVADGSQSIIQYQVEMGVAVRMAIIKEL 304
P P +R EI+ V DG +S+I Q E G+ VRMA++ L
Sbjct: 116 PLPAHRGEEITDDVDDGPRSVIFDQAENGLHVRMALLALL 155
>gnl|CDD|30427 COG0078, ArgF, Ornithine carbamoyltransferase [Amino acid transport
and metabolism].
Length = 310
Score = 143 bits (362), Expect = 7e-35
Identities = 84/320 (26%), Positives = 141/320 (44%), Gaps = 28/320 (8%)
Query: 1 MYSFPLYNFVTVKDLSMQDVNYLLDRANEYFQKKSHFNPSTTRLQGLTQINLFLETSTRT 60
M + +F+++ D + +++ LLD A E K + +L+G +F +TSTRT
Sbjct: 1 MSNLAGRHFLSLLDFTPEELEALLDLAAEL--KAAKKAGKELKLKGKNLALIFEKTSTRT 58
Query: 61 QTSFEVAGKLLGVHVININTKNSAMKKGENIADTIATLNALRPNIIVIRHPYSGAVNSLM 120
+ SFEVA LG H I + +S + +GE+I DT L+ + + I+IR + L
Sbjct: 59 RVSFEVAATQLGGHAIYLGPGDSQLGRGESIKDTARVLSRMV-DAIMIRGFSHETLEELA 117
Query: 121 HKIKGPSIINAGDGTHEHPSQALLDAFAIRHFKGKISNLHIAICGDILHSRVARSDIMLL 180
P +IN HP QAL D I+ G + L +A GD + VA S ++
Sbjct: 118 KYSGVP-VINGLTDE-FHPCQALADLMTIKEHFGSLKGLKLAYVGDG--NNVANSLLLAA 173
Query: 181 NTMGARIRVIAPITLLPKD-----------ISNMGVEVFHDMQKGLKNVDVIMI---LRM 226
+G +R+ P P S + + D ++ +K DV+ + M
Sbjct: 174 AKLGMDVRIATPKGYEPDPEVVEKAKENAKESGGKITLTEDPEEAVKGADVVYTDVWVSM 233
Query: 227 QQERIPRSLIPSIREYKHVYSLDEKKLKYAKKDALVMHPGPINRNYEISSSVADGSQSII 286
+E I Y ++E+ + A DA+ MH P +R E++ V +G S++
Sbjct: 234 GEEAEAEERR--IAFLPP-YQVNEELMALAGPDAIFMHCLPAHRGEEVTDEVFEGPASVV 290
Query: 287 QYQVEMGVAVRMAIIKELLE 306
+ E R+ K +L
Sbjct: 291 FDEAEN----RLHTQKAVLA 306
>gnl|CDD|145728 pfam02729, OTCace_N, Aspartate/ornithine carbamoyltransferase,
carbamoyl-P binding domain.
Length = 140
Score = 140 bits (356), Expect = 4e-34
Identities = 62/144 (43%), Positives = 85/144 (59%), Gaps = 6/144 (4%)
Query: 8 NFVTVKDLSMQDVNYLLDRANEYFQKKSHFNPSTTRLQGLTQINLFLETSTRTQTSFEVA 67
+ +++ DLS +++ LLD A E +K +P L+G T LF E STRT+ SFE A
Sbjct: 2 HLLSLDDLSREELEALLDLAAELKKKPRSGSPL---LRGKTLALLFFEPSTRTRLSFEAA 58
Query: 68 GKLLGVHVININTKNSAMKKGENIADTIATLNALRPNIIVIRHPYSGAVNSLMHKIKGPS 127
K LG HVI ++ +S++ KGE++ DT L+ + IVIRHP GA+ L P
Sbjct: 59 AKRLGGHVIYLDPGSSSLGKGESLKDTARVLSRY-VDAIVIRHPSHGALEELAKYSSVP- 116
Query: 128 IINAGDGTHEHPSQALLDAFAIRH 151
+INAGD HEHP+QAL D IR
Sbjct: 117 VINAGDD-HEHPTQALADLLTIRE 139
>gnl|CDD|36717 KOG1504, KOG1504, KOG1504, Ornithine carbamoyltransferase OTC/ARG3
[Amino acid transport and metabolism].
Length = 346
Score = 80.8 bits (199), Expect = 5e-16
Identities = 82/318 (25%), Positives = 143/318 (44%), Gaps = 26/318 (8%)
Query: 6 LYNFVTVKDLSMQDVNYLLDRANEY---FQKKSHFNPSTTRLQGLTQINLFLETSTRTQT 62
L + +++KD S +++ LLDRA+E ++ N L+G + +F + STRT+
Sbjct: 39 LRDLLSIKDFSTEEIKTLLDRASEVKALLKQNGERNYL--PLKGKSMAMIFAKRSTRTRV 96
Query: 63 SFEVAGKLLGVHVININTKNSAMKKGENIADTIATLNALRPNIIVIRHPYSGAVNSLMHK 122
S E LLG H + + + + E++ DT L+++ +II+ R + +L
Sbjct: 97 STETGFFLLGGHPMFLGKNDIQLGVNESLYDTARVLSSMV-DIIMARVNKHSDILTLAKY 155
Query: 123 IKGPSIINAGDGTHEHPSQALLDAFAIR-HFKGKISNLHIAICGD---ILHSRVARSDIM 178
P IIN G H HP Q L D I HF + L +A GD +LHS + +
Sbjct: 156 SSVP-IIN-GLCDHFHPLQILADLLTIIEHFGKSVEGLKVAWIGDGNNVLHSWMIAAAKF 213
Query: 179 LLNTMGARIRVIAP---ITLLPKDISNMG---VEVFHDMQKGLKNVDVIMI---LRMQQE 229
++ A + P I K + E+ +D + + +V++ + M QE
Sbjct: 214 GIHFSCATPKGYEPDKDIVSKAKQAAEENGSKFELTNDPLEAVIGANVLVTDTWISMGQE 273
Query: 230 RIPRSLIPSIREYKHVYSLDEKKLKYAKKDALVMHPGPINRNYEISSSVADGSQSIIQYQ 289
+ + + + ++ + E+ +K A A MH P + E+S V G SI+ +
Sbjct: 274 DEKEARLKAFQGFQ----VTEELMKVAGPKAKFMHCLPRHPE-EVSDEVFYGPYSIVFPE 328
Query: 290 VEMGVAVRMAIIKELLEN 307
E +MA++ LL N
Sbjct: 329 AENRKWAQMAVMLHLLGN 346
>gnl|CDD|35591 KOG0370, KOG0370, KOG0370, Multifunctional pyrimidine synthesis
protein CAD (includes carbamoyl-phophate synthetase,
aspartate transcarbamylase, and glutamine
amidotransferase) [General function prediction only].
Length = 1435
Score = 45.3 bits (107), Expect = 2e-05
Identities = 30/274 (10%), Positives = 73/274 (26%), Gaps = 35/274 (12%)
Query: 52 LFLETSTRTQTSFEVAGKL---LGVHVININTKNSAMKKGENIADTIATLNALRPNIIVI 108
+ Q E + K + V+ N D + ++
Sbjct: 562 AAQALALSPQILVEKSLKGWKEVEYEVVRDAYDNCITVCNMENFDPLGIHTG-DSIVVAP 620
Query: 109 RHPYSGAVNSLMHKIKGPSIINAGDGTHEHPSQALLDAFAIRHFKGKISNLHIAICGDIL 168
S ++ +I E Q L+ +++ + ++ N ++ +
Sbjct: 621 SQTLSDEEYQMLRTTAIK-VIRHLGVVGECNIQYALNPYSLEYRIIEV-NARLSRSSALA 678
Query: 169 HSRVARSDIMLLNTMGARIRVIAPITLLPKDISNMGVEVFH----------------DMQ 212
L A++ + P+ L ++ F Q
Sbjct: 679 SKATGYP----LAYTAAKLALGIPLPELKNSVTKTTTACFEPSLDYCVVKIPRWDLSKFQ 734
Query: 213 KGLKNVDVIMILRMQQERIPRSLIPSIREYKHVYSLDEKKLKYAKKDALVMHPGPINRNY 272
+ + M + I R+ + + K + +D L + + +
Sbjct: 735 RVSTEIGSSMKSVGEVMAIGRTFEEAFQ--KALRMVDPSLLGFMST-PFLDD-----LDE 786
Query: 273 EISSSVADGSQSIIQYQVEMGVAVRMAIIKELLE 306
E+S+ D I + G +V ++
Sbjct: 787 ELSTPT-DRRVFAIAAALAKGYSVDRIHELTRID 819
>gnl|CDD|173974 cd08209, RLP_DK-MTP-1-P-enolase,
2,3-diketo-5-methylthiopentyl-1-phosphate enolase.
Ribulose bisphosphate carboxylase like proteins (RLPs)
similar to B. subtilis YkrW protein, have been
identified as 2,3-diketo-5-methylthiopentyl-1-phosphate
enolases. They catalyze the tautomerization of
2,3-diketo-5-methylthiopentane 1-phosphate (DK-MTP 1-P).
This is an important step in the methionine salvage
pathway in which 5-methylthio-D-ribose (MTR) derived
from 5'-methylthioadenosine is converted to methionine.
Length = 391
Score = 30.8 bits (70), Expect = 0.47
Identities = 14/33 (42%), Positives = 16/33 (48%), Gaps = 2/33 (6%)
Query: 110 HPYSGAVNSLMHKIKGPSIINAGDGTHEHPSQA 142
HP G V L+ I+NAG G H HP A
Sbjct: 323 HP--GLVPQLLRDFGTDVILNAGGGIHGHPDGA 353
>gnl|CDD|31208 COG1004, Ugd, Predicted UDP-glucose 6-dehydrogenase [Cell envelope
biogenesis, outer membrane].
Length = 414
Score = 29.4 bits (66), Expect = 1.3
Identities = 14/53 (26%), Positives = 22/53 (41%)
Query: 177 IMLLNTMGARIRVIAPITLLPKDISNMGVEVFHDMQKGLKNVDVIMILRMQQE 229
I L GA + P+ + + VE+ D ++ LK D I+I E
Sbjct: 336 IKRLQEKGAEVIAYDPVAMENAFRNFPDVELESDAEEALKGADAIVINTEWDE 388
>gnl|CDD|31443 COG1251, NirB, NAD(P)H-nitrite reductase [Energy production and
conversion].
Length = 793
Score = 29.1 bits (65), Expect = 1.5
Identities = 12/40 (30%), Positives = 16/40 (40%), Gaps = 2/40 (5%)
Query: 111 PYSGAVNSLMHKIKGPSIINAGD--GTHEHPSQALLDAFA 148
Y G+V S K+ G + +AGD T S D
Sbjct: 310 AYEGSVTSTKLKVSGVDVFSAGDFQETEGAESIVFRDEQR 349
>gnl|CDD|32006 COG1821, COG1821, Predicted ATP-utilizing enzyme (ATP-grasp
superfamily) [General function prediction only].
Length = 307
Score = 27.7 bits (61), Expect = 4.4
Identities = 12/90 (13%), Positives = 29/90 (32%), Gaps = 9/90 (10%)
Query: 162 AICGDILHSRVARSDIMLLNTMGARIRVIAPITLLPKDISNMGV---------EVFHDMQ 212
A+ I + +L ++ ++ + +V D +
Sbjct: 9 AVATGIEEFNILAEGRAMLESLLRAFAKSGVEVYETLTFADPSIGVRFKSTADDVLRDEE 68
Query: 213 KGLKNVDVIMILRMQQERIPRSLIPSIREY 242
K L+ D +++ + + + SL EY
Sbjct: 69 KALEKADATLVIAPEDDGLLYSLTRIYEEY 98
>gnl|CDD|38371 KOG3161, KOG3161, KOG3161, Predicted E3 ubiquitin ligase
[Posttranslational modification, protein turnover,
chaperones].
Length = 861
Score = 27.8 bits (61), Expect = 4.6
Identities = 21/101 (20%), Positives = 34/101 (33%), Gaps = 4/101 (3%)
Query: 215 LKNVDVIMILRMQQERIPRSLIPSIREYKHVYSLDEKKLKYAKKD--ALVMHPGPINRNY 272
L D+ + L + Q P SL H L K+D + +M RNY
Sbjct: 11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYNASCPTKRDEDSSLMQLKEEPRNY 70
Query: 273 EISSSVADGSQSIIQYQVEMGVAVRMAIIKELLENQNKITQ 313
+ D I+ +E G+ + L + I +
Sbjct: 71 ALLRREHD--AQIVHIAMEAGLRISPEQWSSLQLGDSIIDK 109
>gnl|CDD|34965 COG5406, COG5406, Nucleosome binding factor SPN, SPT16 subunit
[Transcription / DNA replication, recombination, and
repair / Chromatin structure and dynamics].
Length = 1001
Score = 27.0 bits (59), Expect = 6.5
Identities = 16/53 (30%), Positives = 28/53 (52%), Gaps = 3/53 (5%)
Query: 174 RSDIMLLNTMGARIRVI-APITLLPKDISNMGVEVFHDMQKGLKNVDVIMILR 225
RS +M+ T +++ AP ++ + + + +Q GLKN DV+ ILR
Sbjct: 810 RSSVMIKPTTDCLVQLDEAPFFVI--TLEEVEIVNLERVQFGLKNFDVVFILR 860
>gnl|CDD|173969 cd08148, RuBisCO_large, Ribulose bisphosphate carboxylase large
chain. Ribulose bisphosphate carboxylase (Rubisco)
plays an important role in the Calvin reductive pentose
phosphate pathway. It catalyzes the primary CO2 fixation
step. Rubisco is activated by carbamylation of an active
site lysine, stabilized by a divalent cation, which then
catalyzes the proton abstraction from the substrate
ribulose 1,5 bisphosphate (RuBP) and leads to the
formation of two molecules of 3-phosphoglycerate.
Members of the Rubisco family can be divided into 4
subgroups, Form I-IV, which differ in their taxonomic
distribution and subunit composition. Form I-III have
Rubisco activity, while Form IV, also called
Rubisco-like proteins (RLP), are missing critical active
site residues and therefore do not catalyze CO2
fixation. They are believed to utilize a related
enzymatic mechanism, but have divergent functions.
Length = 366
Score = 26.6 bits (59), Expect = 9.4
Identities = 10/24 (41%), Positives = 13/24 (54%)
Query: 127 SIINAGDGTHEHPSQALLDAFAIR 150
I+ AG G H HP + A A+R
Sbjct: 341 VILQAGGGIHGHPDGTVAGARAMR 364
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.320 0.135 0.376
Gapped
Lambda K H
0.267 0.0828 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,593,562
Number of extensions: 187908
Number of successful extensions: 427
Number of sequences better than 10.0: 1
Number of HSP's gapped: 411
Number of HSP's successfully gapped: 17
Length of query: 316
Length of database: 6,263,737
Length adjustment: 94
Effective length of query: 222
Effective length of database: 4,232,491
Effective search space: 939613002
Effective search space used: 939613002
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 (21.8 bits)
S2: 57 (25.6 bits)