RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780294|ref|YP_003064707.1| N-acetyl-gamma-glutamyl-phosphate reductase [Candidatus Liberibacter asiaticus str. psy62] (311 letters) >gnl|CDD|183344 PRK11863, PRK11863, N-acetyl-gamma-glutamyl-phosphate reductase; Provisional. Length = 313 Score = 493 bits (1272), Expect = e-140 Identities = 150/309 (48%), Positives = 204/309 (66%), Gaps = 4/309 (1%) Query: 1 MYKIFIDGEHGTTGLKIRSRIVQRKDLCLLSIPCEERHNLRYREDLLNAADVSILCLPDV 60 K+FIDGE GTTGL+IR R+ R D+ LLSIP +R + R +LLNAADV+ILCLPD Sbjct: 2 KPKVFIDGEAGTTGLQIRERLAGRSDIELLSIPEAKRKDAAARRELLNAADVAILCLPDD 61 Query: 61 ASLEIIQLIKKNGINSRIIDTSTAHRIAPGWVYGFPEMDKSQKEKIRSARYITNPGCYAT 120 A+ E + LI R+ID STAHR APGWVYGFPE+ Q+E+I +A+ + NPGCY T Sbjct: 62 AAREAVALIDNPAT--RVIDASTAHRTAPGWVYGFPELAPGQRERIAAAKRVANPGCYPT 119 Query: 121 GAIAILRPLRKAKLLPDRYPITINAVSGYTGGGKKLISRMEQKNMPDTISSNHFFYSLDL 180 GAIA+LRPL A LLP YP++INAVSGY+GGGK +I+ E PD + Y L L Sbjct: 120 GAIALLRPLVDAGLLPADYPVSINAVSGYSGGGKAMIAAYE--AAPDGKAPAFRLYGLGL 177 Query: 181 LHKHLPEITQYSLIKTSPMFLPSVGRFPQGIAIQISLDMERLSWKTNSEELHSIFQEYYM 240 HKHLPE+ ++ + P+F PSVG F QG+ + + L + L +E+LH+ ++Y Sbjct: 178 AHKHLPEMQAHAGLARRPIFTPSVGNFRQGMLVTVPLHLRLLPGGPTAEDLHAALADHYA 237 Query: 241 GQNIVSVVPLEESRKIKTIACEMMSGNDKLHLFFFDSSELPYINIIAVFDNLGKGASGAA 300 G+ V V PL+ES + + E ++G ++L LF F + + ++A DNLGKGASGAA Sbjct: 238 GEAFVRVAPLDESAALDFLDPEALNGTNRLELFVFGNEDHGQAVLVARLDNLGKGASGAA 297 Query: 301 IQNMDLLLS 309 +QN++L+L Sbjct: 298 VQNLNLMLG 306 >gnl|CDD|162560 TIGR01851, argC_other, N-acetyl-gamma-glutamyl-phosphate reductase, uncommon form. This model represents the less common of two related families of N-acetyl-gamma-glutamyl-phosphate reductase, an enzyme catalyzing the third step or Arg biosynthesis from Glu. The two families differ by phylogeny, similarity clustering, and gap architecture in a multiple sequence alignment. Length = 310 Score = 344 bits (883), Expect = 2e-95 Identities = 143/308 (46%), Positives = 204/308 (66%), Gaps = 4/308 (1%) Query: 3 KIFIDGEHGTTGLKIRSRIVQRKDLCLLSIPCEERHNLRYREDLLNAADVSILCLPDVAS 62 K+FIDGE GTTGL+IR R+ R D+ LLSI + R + R LLNAADV+ILCLPD A+ Sbjct: 3 KVFIDGEAGTTGLQIRERLSGRDDIELLSIAPDRRKDAAERAKLLNAADVAILCLPDDAA 62 Query: 63 LEIIQLIKKNGINSRIIDTSTAHRIAPGWVYGFPEMDKSQKEKIRSARYITNPGCYATGA 122 E + L+ + N+ IID STA+R A W YGFPE+ Q+EKIR+++ I NPGCY TG Sbjct: 63 REAVSLV--DNPNTCIIDASTAYRTADDWAYGFPELAPGQREKIRNSKRIANPGCYPTGF 120 Query: 123 IAILRPLRKAKLLPDRYPITINAVSGYTGGGKKLISRMEQKNMPDTISSNHFFYSLDLLH 182 IA++RPL +A +LP +PITINAVSGY+GGGK +I+ EQ + + Y L L H Sbjct: 121 IALMRPLVEAGILPADFPITINAVSGYSGGGKAMIADYEQGSADNPSLQPFRIYGLALTH 180 Query: 183 KHLPEITQYSLIKTSPMFLPSVGRFPQGIAIQISLDMERLSWKTNSEELHSIFQEYYMGQ 242 KHLPE+ +S + P+F P+VG F QG+A+ I L ++ L+ K + ++H+ +YY G+ Sbjct: 181 KHLPEMRVHSGLALPPIFTPAVGNFAQGMAVTIPLHLQTLASKVSPADIHAALADYYQGE 240 Query: 243 NIVSVVPLEESRKIK--TIACEMMSGNDKLHLFFFDSSELPYINIIAVFDNLGKGASGAA 300 V V PL++ + + + ++G ++L LF F S + ++A DNLGKGASGAA Sbjct: 241 QFVRVAPLDDVETLDNTFLDPQGLNGTNRLDLFVFGSDDGERALLVARLDNLGKGASGAA 300 Query: 301 IQNMDLLL 308 +QN++++L Sbjct: 301 VQNLNIML 308 >gnl|CDD|178552 PLN02968, PLN02968, Probable N-acetyl-gamma-glutamyl-phosphate reductase. Length = 381 Score = 211 bits (539), Expect = 2e-55 Identities = 93/347 (26%), Positives = 150/347 (43%), Gaps = 61/347 (17%) Query: 3 KIFIDGEHGTTGLKIRSRIVQRKDLCLLSIPCEERHN------------------LRYRE 44 +IF+ G G TG ++R + D + + + + + ++ Sbjct: 40 RIFVLGASGYTGAEVRRLLANHPDFEITVMTADRKAGQSFGSVFPHLITQDLPNLVAVKD 99 Query: 45 DLLNAADVSILCLPDVASLEIIQLIKKNGINSRIIDTSTAHRIAPG-----W-------- 91 + D CLP + EII+ + K+ +I+D S R+ W Sbjct: 100 ADFSDVDAVFCCLPHGTTQEIIKALPKD---LKIVDLSADFRLRDIAEYEEWYGHPHRAP 156 Query: 92 ------VYGFPEMDKSQKEKIRSARYITNPGCYATGAIAILRPLRKAKLLPDRYPITINA 145 VYG E+ Q+E+I+SAR + NPGCY TG L PL KA L+ I I+A Sbjct: 157 ELQKEAVYGLTEL---QREEIKSARLVANPGCYPTGIQLPLVPLVKAGLIEPD-NIIIDA 212 Query: 146 VSGYTGGGKKLISRMEQKNMPDTISSNHFFYSLDLLHKHLPEITQ----YSLIKTSPMFL 201 SG +G G+ + + I + Y + H+H+PEI Q + K +P F Sbjct: 213 KSGVSGAGRGAKEANLYTEIAEGIGA----YGVT-RHRHVPEIEQGLADAAGSKVTPSFT 267 Query: 202 PSVGRFPQGIAIQISLDMERLSWKTNSEELHSIFQEYYMGQNIVSVVPLEESRKIKTIAC 261 P + +G+ + + + +E+LH +E Y G+ V V LE T Sbjct: 268 PHLMPMSRGMQSTVYVHY---APGVTAEDLHQHLKERYEGEEFVKV--LERGAVPHT--- 319 Query: 262 EMMSGNDKLHLFFFDSSELPYINIIAVFDNLGKGASGAAIQNMDLLL 308 + + G++ L F II+V DNL KGASG A+QN++L++ Sbjct: 320 DHVRGSNYCELNVFADRIPGRAIIISVIDNLVKGASGQAVQNLNLMM 366 >gnl|CDD|162559 TIGR01850, argC, N-acetyl-gamma-glutamyl-phosphate reductase, common form. This model represents the more common of two related families of N-acetyl-gamma-glutamyl-phosphate reductase, an enzyme catalyzing the third step or Arg biosynthesis from Glu. The two families differ by phylogeny, similarity clustering, and the gap architecture in a multiple sequence alignment. Bacterial members of this family tend to be found within Arg biosynthesis operons. Length = 346 Score = 148 bits (377), Expect = 1e-36 Identities = 82/289 (28%), Positives = 127/289 (43%), Gaps = 44/289 (15%) Query: 44 EDLLNAADVSILCLPDVASLEII-QLIKKNGINSRIIDTSTAHRIAP------------- 89 E++ ADV L LP S E+ +L+ ++ID S R+ Sbjct: 63 EEIAEDADVVFLALPHGVSAELAPELLAAG---VKVIDLSADFRLKDPEVYEKWYGFEHA 119 Query: 90 ------GWVYGFPEMDKSQKEKIRSARYITNPGCYATGAIAILRPLRKAKLLPDRYPITI 143 VYG PE+ +E+I+ AR I NPGCY T + L PL K L+ D I + Sbjct: 120 GPELLQEAVYGLPEL---HREEIKGARLIANPGCYPTATLLALAPLLKEGLI-DPTSIIV 175 Query: 144 NAVSGYTGGGKKLISRMEQKNMPDTISSNHFFYSLDLLHKHLPEITQY----SLIKTSPM 199 +A SG +G G+K N ++ N Y + H+H PEI Q + K Sbjct: 176 DAKSGVSGAGRKA----SPANHFPEVNENLRPYKVT-GHRHTPEIEQELGRLAGGKVKVS 230 Query: 200 FLPSVGRFPQGIAIQISLDMERLSWKTNSEELHSIFQEYYMGQNIVSVVPLEESRKIKTI 259 F P + +GI I +L E+L + ++E+Y + V V+P E K + Sbjct: 231 FTPHLVPMTRGILATIYA---KLKDGLTEEDLRAAYEEFYADEPFVRVLPEGEYPSTKAV 287 Query: 260 ACEMMSGNDKLHLFFFDSSELPYINIIAVFDNLGKGASGAAIQNMDLLL 308 G++ + F + +++ DNL KGA+G A+QNM+L+ Sbjct: 288 I-----GSNFCDIGFAVDERTGRVVVVSAIDNLVKGAAGQAVQNMNLMF 331 >gnl|CDD|179024 PRK00436, argC, N-acetyl-gamma-glutamyl-phosphate reductase; Validated. Length = 343 Score = 147 bits (373), Expect = 4e-36 Identities = 80/285 (28%), Positives = 135/285 (47%), Gaps = 39/285 (13%) Query: 44 EDLLNAADVSILCLPDVASLEIIQLIKKNGINSRIIDTSTAHRIAPG------------- 90 ++L ADV L LP S+++ + + G+ ++ID S R+ Sbjct: 63 PEILAGADVVFLALPHGVSMDLAPQLLEAGV--KVIDLSADFRLKDPEVYEKWYGFEHAA 120 Query: 91 ------WVYGFPEMDKSQKEKIRSARYITNPGCYATGAIAILRPLRKAKLLPDRYPITIN 144 VYG PE+ +E+I+ AR I NPGCY T ++ L PL KA L+ D I I+ Sbjct: 121 PELLKEAVYGLPEL---NREEIKGARLIANPGCYPTASLLALAPLLKAGLI-DPDSIIID 176 Query: 145 AVSGYTGGGKKLISRMEQKNMPDTISSNHFFYSLDLLHKHLPEITQY-SLIKTSPMFLPS 203 A SG +G G+K + + ++ N Y + H+H PEI Q S + F P Sbjct: 177 AKSGVSGAGRKA----SEGTLFSEVNENLRPYKV-GGHRHTPEIEQELSALAGEVSFTPH 231 Query: 204 VGRFPQGIAIQISLDMERLSWKTNSEELHSIFQEYYMGQNIVSVVPLEESRKIKTIACEM 263 + +GI I RL +E++ + ++E+Y + V V+P + + K++ Sbjct: 232 LVPMTRGILATIYA---RLKDPVTAEDVRAAYEEFYADEPFVRVLPEGQYPETKSVR--- 285 Query: 264 MSGNDKLHLFFFDSSELPYINIIAVFDNLGKGASGAAIQNMDLLL 308 G++ + F + +++ DNL KGA+G A+QNM+++ Sbjct: 286 --GSNFCDIGFAVDERTGRLVVVSAIDNLVKGAAGQAVQNMNIMF 328 >gnl|CDD|129092 smart00859, Semialdhyde_dh, Semialdehyde dehydrogenase, NAD binding domain. The semialdehyde dehydrogenase family is found in N-acetyl-glutamine semialdehyde dehydrogenase (AgrC), which is involved in arginine biosynthesis, and aspartate-semialdehyde dehydrogenase, an enzyme involved in the biosynthesis of various amino acids from aspartate. This family is also found in yeast and fungal Arg5,6 protein, which is cleaved into the enzymes N-acety-gamma-glutamyl-phosphate reductase and acetylglutamate kinase. These are also involved in arginine biosynthesis. All proteins in this entry contain a NAD binding region of semialdehyde dehydrogenase. Length = 122 Score = 63.3 bits (155), Expect = 7e-11 Identities = 28/115 (24%), Positives = 46/115 (40%), Gaps = 19/115 (16%) Query: 3 KIFIDGEHGTTGLKIRSRIVQRKDLCLLSI---------PCEERH-NLRYREDLL----- 47 K+ I G G G ++ + + D ++++ E +L+ L Sbjct: 1 KVAIVGATGYVGQELLRLLAEHPDFEVVALAASARSAGKRVSEAGPHLKGEVVLELEPED 60 Query: 48 ---NAADVSILCLPDVASLEIIQLIKKN-GINSRIIDTSTAHRIAPGWVYGFPEM 98 A D+ L LP S EI L+ K ++ID S+A R+ YG PE+ Sbjct: 61 FEELAVDIVFLALPHGVSKEIAPLLPKAAEAGVKVIDLSSAFRMDDDVPYGLPEV 115 >gnl|CDD|162144 TIGR00978, asd_EA, aspartate-semialdehyde dehydrogenase (non-peptidoglycan organisms). Two closely related families of aspartate-semialdehyde dehydrogenase are found. They differ by a deep split in phylogenetic and percent identity trees and in gap patterns. Separate models are built for the two types in order to exclude the USG-1 protein, found in several species, which is specifically related to the Bacillus subtilis type of aspartate-semialdehyde dehydrogenase. Members of this type are found primarily in organisms that lack peptidoglycan. Length = 341 Score = 38.2 bits (89), Expect = 0.003 Identities = 31/137 (22%), Positives = 50/137 (36%), Gaps = 15/137 (10%) Query: 25 KDLCLLSIPC---EERHNLRYR---EDLLNAADVSILCLPDVASLEIIQLIKKNGINSRI 78 + P E +L D+ LP + E+ + + G + Sbjct: 43 GEAVKWIEPGDMPEYVRDLPIVEPEPVASKDVDIVFSALPSEVAEEVEPKLAEAGKP--V 100 Query: 79 IDTSTAHRIAPGWVYGFPEMD-------KSQKEKIRSARYITNPGCYATGAIAILRPLRK 131 ++ HR+ P PE++ K QKE+ +TNP C G L+PL Sbjct: 101 FSNASNHRMDPDVPLIIPEVNSDHLELLKVQKERGWKGFIVTNPNCTTAGLTLALKPLID 160 Query: 132 AKLLPDRYPITINAVSG 148 A + + T+ AVSG Sbjct: 161 AFGIKKVHVTTMQAVSG 177 >gnl|CDD|162290 TIGR01296, asd_B, aspartate-semialdehyde dehydrogenase (peptidoglycan organisms). Two closely related families of aspartate-semialdehyde dehydrogenase are found. They differ by a deep split in phylogenetic and percent identity trees and in gap patterns. This model represents a branch more closely related to the USG-1 protein than to the other aspartate-semialdehyde dehydrogenases represented in model TIGR00978. Length = 339 Score = 33.2 bits (76), Expect = 0.079 Identities = 19/71 (26%), Positives = 32/71 (45%) Query: 78 IIDTSTAHRIAPGWVYGFPEMDKSQKEKIRSARYITNPGCYATGAIAILRPLRKAKLLPD 137 +ID ++A R+ P PE++ ++ + I NP C + +L+PL + Sbjct: 88 VIDNTSAFRMDPDVPLVVPEVNLEDLKEFNTKGIIANPNCSTIQMVVVLKPLHDEAKIKR 147 Query: 138 RYPITINAVSG 148 T AVSG Sbjct: 148 VVVSTYQAVSG 158 >gnl|CDD|136022 PRK06728, PRK06728, aspartate-semialdehyde dehydrogenase; Provisional. Length = 347 Score = 30.0 bits (67), Expect = 0.87 Identities = 20/71 (28%), Positives = 33/71 (46%), Gaps = 2/71 (2%) Query: 78 IIDTSTAHRIAPGWVYGFPEMDKSQKEKIRSARYITNPGCYATGAIAILRPLRKAKLLPD 137 +ID ++ +R+A PE++ ++ + I P C A + L+P+RK L Sbjct: 95 VIDNTSEYRMAHDVPLVVPEVNAHTLKEHK--GIIAVPNCSALQMVTALQPIRKVFGLER 152 Query: 138 RYPITINAVSG 148 T AVSG Sbjct: 153 IIVSTYQAVSG 163 >gnl|CDD|181530 PRK08664, PRK08664, aspartate-semialdehyde dehydrogenase; Reviewed. Length = 349 Score = 29.4 bits (67), Expect = 1.3 Identities = 16/56 (28%), Positives = 26/56 (46%), Gaps = 5/56 (8%) Query: 99 DKSQKEKIRSARYITNPGCYATGAIAILRPLRKAKLLPDR-YPITINAVS--GYTG 151 + +K + +TNP C G + L+PL +R + T+ A+S GY G Sbjct: 132 EVQRKRRGWDGFIVTNPNCSTIGLVLALKPLMDFG--IERVHVTTMQAISGAGYPG 185 >gnl|CDD|129290 TIGR00186, rRNA_methyl_3, rRNA methylase, putative, group 3. this is part of the trmH (spoU) family of rRNA methylases. Length = 237 Score = 27.7 bits (62), Expect = 3.6 Identities = 20/94 (21%), Positives = 36/94 (38%), Gaps = 25/94 (26%) Query: 64 EIIQLIKKNGINSRIIDTSTAH-------------RIAPGWVYGFPEMDKSQKEKIRSAR 110 ++IQL KK GIN +++D ++ P ++ K+ K K + Sbjct: 33 KLIQLAKKQGINIQLVDRQKLDQLTKGGNHQGIAAKVKPILYKDLNDLYKTAKSKKQPFL 92 Query: 111 Y----ITNPG--------CYATGAIAILRPLRKA 132 IT+P A G ++ P R++ Sbjct: 93 LILDEITDPHNLGAILRTAEAFGVDGVILPKRRS 126 >gnl|CDD|163025 TIGR02800, propeller_TolB, tol-pal system beta propeller repeat protein TolB. The Tol-PAL system is required for bacterial outer membrane integrity. E. coli TolB is involved in the tonB-independent uptake of group A colicins (colicins A, E1, E2, E3 and K), and is necessary for the colicins to reach their respective targets after initial binding to the bacteria. It is also involved in uptake of filamentous DNA. Study of its structure suggest that the TolB protein might be involved in the recycling of peptidoglycan or in its covalent linking with lipoproteins. The Tol-Pal system is also implicated in pathogenesis of E. coli, Haemophilus ducreyi, Salmonella enterica and Vibrio cholerae, but the mechanism(s) is unclear. Length = 417 Score = 26.9 bits (60), Expect = 6.6 Identities = 16/60 (26%), Positives = 24/60 (40%), Gaps = 7/60 (11%) Query: 143 INAVSGYTGGGKKLISRMEQKNMPDTISSNHFFYSLDLLHKHLPEITQYSLIKTSPMFLP 202 +N ++ G KL + + PD Y +DL K L +T I T P + P Sbjct: 235 MNGAPAFSPDGSKLAVSLSKDGNPD-------IYVMDLDGKQLTRLTNGPGIDTEPSWSP 287 >gnl|CDD|184143 PRK13561, PRK13561, putative diguanylate cyclase; Provisional. Length = 651 Score = 26.6 bits (59), Expect = 8.8 Identities = 24/76 (31%), Positives = 40/76 (52%), Gaps = 15/76 (19%) Query: 57 LPDVASLEIIQLIKKNGINSRIIDTSTAHRIAPGWVYGFPEMDKSQKEKIRSARYITNPG 116 LP +L +QL+ N + + +++ T +RI PG + E+ +S++ I +P Sbjct: 486 LPLSVNLSALQLMHPNMV-ADMLELLTRYRIQPGTL--ILEVTESRR--------IDDP- 533 Query: 117 CYATGAIAILRPLRKA 132 A+AILRPLR A Sbjct: 534 ---HAAVAILRPLRNA 546 >gnl|CDD|132324 TIGR03281, methan_mark_12, putative methanogenesis marker protein 12. Members of this protein family, to date, are found in a completed prokaryotic genome if and only if the species is one of the archaeal methanogens. The exact function is unknown, but likely is linked to methanogenesis or a process closely connected to it. Length = 326 Score = 26.3 bits (58), Expect = 9.6 Identities = 12/51 (23%), Positives = 25/51 (49%), Gaps = 4/51 (7%) Query: 117 CYATG-AIAILRPLRKAKLLPDRYPITINAVSGYTGGGKKLISRMEQKNMP 166 Y+ G I+ + P+ + K +R +I TGGG ++ +++ +P Sbjct: 57 TYSMGDGISKITPIERVK---NRGLQSIEGAGKKTGGGTRVYDEIKESGIP 104 >gnl|CDD|179892 PRK04922, tolB, translocation protein TolB; Provisional. Length = 433 Score = 26.6 bits (59), Expect = 9.7 Identities = 9/27 (33%), Positives = 14/27 (51%) Query: 176 YSLDLLHKHLPEITQYSLIKTSPMFLP 202 Y +DL + L +T + I T P + P Sbjct: 275 YVMDLGSRQLTRLTNHFGIDTEPTWAP 301 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 0.321 0.138 0.402 Gapped Lambda K H 0.267 0.0660 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 5,101,033 Number of extensions: 326201 Number of successful extensions: 635 Number of sequences better than 10.0: 1 Number of HSP's gapped: 610 Number of HSP's successfully gapped: 17 Length of query: 311 Length of database: 5,994,473 Length adjustment: 93 Effective length of query: 218 Effective length of database: 3,984,929 Effective search space: 868714522 Effective search space used: 868714522 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 (25.9 bits)