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)