RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780438|ref|YP_003064851.1| pyridoxine 5'-phosphate
synthase [Candidatus Liberibacter asiaticus str. psy62]
(261 letters)
>gnl|CDD|179983 PRK05265, PRK05265, pyridoxine 5'-phosphate synthase; Provisional.
Length = 239
Score = 306 bits (787), Expect = 3e-84
Identities = 96/248 (38%), Positives = 137/248 (55%), Gaps = 10/248 (4%)
Query: 1 MSTSVSVNLNAVAVLRNRRNLPWPNLVHIGKIALQSGASGLTVHPRPDQRHIRYTDLPEI 60
M + VN++ +A LRN R +P+ V IA Q+GA G+TVH R D+RHIR D+ +
Sbjct: 1 MMIRLGVNIDHIATLRNARGTNYPDPVRAALIAEQAGADGITVHLREDRRHIRDRDVRLL 60
Query: 61 RRLIDEQFPKAELNIEGYPNETFLNLCERYKPEQITLVPDDPHQLTSDHGWDFLQNQALL 120
R + K ELN+E E L++ KP Q+TLVP+ +LT++ G D L
Sbjct: 61 RETL-----KTELNLEMAATEEMLDIALEVKPHQVTLVPEKREELTTEGGLDVAGQFDKL 115
Query: 121 TKTVARLHNLGSRISLFADGNGNEHSLQAAKLTGADCIELYTGPYGACYNNPQQERIFLN 180
+ARL + G R+SLF D + ++AA GAD IEL+TGPY + L
Sbjct: 116 KPAIARLKDAGIRVSLFID--PDPEQIEAAAEVGADRIELHTGPYADAKTEAEAAE--LE 171
Query: 181 KLAITAQLAQKMDLQINAGHDLTIQNIPNLINAIPYISEISVGHAFAATALECGVKEAVF 240
++A A+LA + L +NAGH L N+ I AIP I E+++GHA A AL G++EAV
Sbjct: 172 RIAKAAKLAASLGLGVNAGHGLNYHNVK-PIAAIPGIEELNIGHAIIARALFVGLEEAVR 230
Query: 241 CFRRACGQ 248
+R +
Sbjct: 231 EMKRLMDE 238
>gnl|CDD|129650 TIGR00559, pdxJ, pyridoxine 5'-phosphate synthase. PdxJ is
required in the biosynthesis of pyridoxine (vitamin B6),
a precursor to the enzyme cofactor pyridoxal phosphate.
ECOCYC describes the predicted reaction equation as
1-amino-propan-2-one-3-phosphate +
deoxyxylulose-5-phosphate = pyridoxine-5'-phosphate. The
product of that reaction is oxidized by PdxH to
pyridoxal 5'-phosphate.
Length = 237
Score = 186 bits (475), Expect = 3e-48
Identities = 83/239 (34%), Positives = 131/239 (54%), Gaps = 8/239 (3%)
Query: 6 SVNLNAVAVLRNRRNLPWPNLVHIGKIALQSGASGLTVHPRPDQRHIRYTDLPEIRRLID 65
VN++ +A LRN R P+ + IA Q+GA G+TVH R D+RHI+ D+ +++ +
Sbjct: 3 GVNVDHIATLRNARGTNEPDPLRAALIAEQAGADGITVHLREDRRHIQDRDVYDLKEALT 62
Query: 66 EQFPKAELNIEGYPNETFLNLCERYKPEQITLVPDDPHQLTSDHGWDFLQNQALLTKTVA 125
NIE P E + + E KPEQ+TLVP+ ++T++ G D + + L + V
Sbjct: 63 -----TPFNIEMAPTEEMIRIAEEIKPEQVTLVPEARDEVTTEGGLDVARLKDKLCELVK 117
Query: 126 RLHNLGSRISLFADGNGNEHSLQAAKLTGADCIELYTGPYGACYNNPQQERIFLNKLAIT 185
R H G +SLF D ++ + AA GAD IE++TGPY YN + L ++
Sbjct: 118 RFHAAGIEVSLFID--ADKDQISAAAEVGADRIEIHTGPYANAYNKKEMAEE-LQRIVKA 174
Query: 186 AQLAQKMDLQINAGHDLTIQNIPNLINAIPYISEISVGHAFAATALECGVKEAVFCFRR 244
+ A + L++NAGH L N+ +PY+ E+++GHA A A+ G++EA+ R
Sbjct: 175 SVHAHSLGLKVNAGHGLNYHNVKYFAEILPYLDELNIGHAIIADAVYLGLEEAIREMRD 233
>gnl|CDD|129820 TIGR00737, nifR3_yhdG, putative TIM-barrel protein, nifR3 family.
Members of this family show a distant relationship to
alpha/beta (TIM) barrel enzymes such as dihydroorotate
dehydrogenase and glycolate oxidase.
Length = 319
Score = 31.2 bits (71), Expect = 0.30
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 25 NLVHIGKIALQSGASGLTVHPR 46
N V +IA +GA +T+H R
Sbjct: 148 NAVEAARIAEDAGAQAVTLHGR 169
>gnl|CDD|162318 TIGR01361, DAHP_synth_Bsub, phospho-2-dehydro-3-deoxyheptonate
aldolase. The member of this family from Synechocystis
PCC 6803, CcmA, was shown to be essential for
carboxysome formation. However, no other candidate for
this enzyme is present in that species, chorismate
biosynthesis does occur, other species having this
protein lack carboxysomes but appear to make chorismate,
and a requirement of CcmA for carboxysome formation does
not prohibit a role in chorismate biosynthesis.
Length = 260
Score = 28.5 bits (64), Expect = 1.8
Identities = 18/60 (30%), Positives = 31/60 (51%), Gaps = 13/60 (21%)
Query: 2 STSVSVNLNAVAVLRNRRNLP-----------WPNLVHIGKIALQSGASGLT--VHPRPD 48
+T +++L+AV VL+ +LP ++ + K A+ +GA GL VHP P+
Sbjct: 176 ATRNTLDLSAVPVLKKETHLPIIVDPSHAAGRRDLVIPLAKAAIAAGADGLMIEVHPDPE 235
>gnl|CDD|181535 PRK08673, PRK08673, 3-deoxy-7-phosphoheptulonate synthase;
Reviewed.
Length = 335
Score = 28.3 bits (64), Expect = 2.3
Identities = 18/63 (28%), Positives = 32/63 (50%), Gaps = 15/63 (23%)
Query: 1 MSTSVSVNLNAVAVLRNRRNLP-----------WPNLVH-IGKIALQSGASGLT--VHPR 46
+T +++L+AV V++ +LP +LV + A+ +GA GL VHP
Sbjct: 243 TATRNTLDLSAVPVIKKLTHLPVIVDPSHATGKR-DLVEPLALAAVAAGADGLIVEVHPD 301
Query: 47 PDQ 49
P++
Sbjct: 302 PEK 304
>gnl|CDD|184028 PRK13398, PRK13398, 3-deoxy-7-phosphoheptulonate synthase;
Provisional.
Length = 266
Score = 28.1 bits (63), Expect = 2.3
Identities = 23/81 (28%), Positives = 40/81 (49%), Gaps = 16/81 (19%)
Query: 2 STSVSVNLNAVAVLRNRRNLP----------WPNLVH-IGKIALQSGASGLTV--HPRPD 48
T +++L AVAV++ +LP LV + K A+ +GA GL + HP P+
Sbjct: 178 YTRNTLDLAAVAVIKELSHLPIIVDPSHATGRRELVIPMAKAAIAAGADGLMIEVHPEPE 237
Query: 49 QR---HIRYTDLPEIRRLIDE 66
+ + + E++ L+DE
Sbjct: 238 KALSDARQTLNFEEMKELVDE 258
>gnl|CDD|151986 pfam11550, IglC, Intracellular growth locus C protein. IglC
protein is involved in the escape of F.tularensis live
vaccine strain. It has been shown that the expression of
IglC is essential for F.tularensis to induce macrophage
apoptosis. IglC adopts a beta-sandwich conformation that
has no similarity to any known protein structure.
Length = 210
Score = 27.8 bits (61), Expect = 2.8
Identities = 15/53 (28%), Positives = 26/53 (49%), Gaps = 1/53 (1%)
Query: 151 KLTGADCIELYTGPYGACYNNPQQERIFLNKLAITAQLAQKMDLQINAGHDLT 203
++T + I + T P AC + R+F++ L I + K + I G D+T
Sbjct: 10 QVTSGETIHVRTDP-TACIGSHPNCRLFIDSLTIAGEKLDKNIVAIEGGEDVT 61
>gnl|CDD|172065 PRK13463, PRK13463, phosphatase PhoE; Provisional.
Length = 203
Score = 27.7 bits (61), Expect = 2.8
Identities = 21/75 (28%), Positives = 37/75 (49%), Gaps = 7/75 (9%)
Query: 43 VHPRPDQRHIRYTDLPEIRRLI----DEQFPKAELNIEGYPNETFLNLCERYKPEQITLV 98
++ P +R + +L + R I DE F E+N+ + +T ++ ER P+ I L
Sbjct: 52 IYSSPSERTLHTAELIKGERDIPIIADEHF--YEINMGIWEGQTIDDI-ERQYPDDIQLF 108
Query: 99 PDDPHQLTSDHGWDF 113
++PH S G +F
Sbjct: 109 WNEPHLFQSTSGENF 123
>gnl|CDD|178463 PLN02875, PLN02875, 4-hydroxyphenylpyruvate dioxygenase.
Length = 398
Score = 27.3 bits (61), Expect = 3.7
Identities = 14/38 (36%), Positives = 22/38 (57%), Gaps = 1/38 (2%)
Query: 201 DLTIQNIPNLINAIPYISEISVGHAFAA-TALECGVKE 237
D + N+PNL+ A+ YI+ + H FA TA + G +
Sbjct: 182 DHAVGNVPNLLPAVNYIAGFTGFHEFAEFTAEDVGTVD 219
>gnl|CDD|129465 TIGR00368, TIGR00368, Mg chelatase-related protein. The N-terminal
end matches very strongly a pfam Mg_chelatase domain.
Length = 499
Score = 27.1 bits (60), Expect = 5.0
Identities = 11/36 (30%), Positives = 17/36 (47%), Gaps = 2/36 (5%)
Query: 161 YTGPYGACYNNPQQERIFLNKLAITAQLAQKMDLQI 196
Y G C +PQQ + NKL+ ++DL +
Sbjct: 353 YGGKNTHCRCSPQQISRYWNKLS--GPFLDRIDLSV 386
>gnl|CDD|162163 TIGR01027, proB, glutamate 5-kinase. Bacterial ProB proteins hit
the full length of this model, but the ProB-like domain
of delta 1-pyrroline-5-carboxylate synthetase does not
hit the C-terminal 100 residues of this model. The noise
cutoff is set low enough to hit delta
1-pyrroline-5-carboxylate synthetase and other partial
matches to this family.
Length = 363
Score = 26.9 bits (60), Expect = 5.6
Identities = 11/36 (30%), Positives = 16/36 (44%)
Query: 105 LTSDHGWDFLQNQALLTKTVARLHNLGSRISLFADG 140
LT G + A L + VA LH G + + + G
Sbjct: 12 LTGSSGSLDRSHIAELVEQVAALHAAGHEVVIVSSG 47
>gnl|CDD|181255 PRK08153, PRK08153, histidinol-phosphate aminotransferase;
Provisional.
Length = 369
Score = 26.9 bits (60), Expect = 5.9
Identities = 10/29 (34%), Positives = 16/29 (55%)
Query: 114 LQNQALLTKTVARLHNLGSRISLFADGNG 142
L++QA L + V ++ RI+ A NG
Sbjct: 266 LKDQAYLAEVVGKIAAARDRIAAIARANG 294
>gnl|CDD|184624 PRK14327, PRK14327, (dimethylallyl)adenosine tRNA
methylthiotransferase; Provisional.
Length = 509
Score = 26.6 bits (59), Expect = 6.7
Identities = 24/63 (38%), Positives = 33/63 (52%), Gaps = 10/63 (15%)
Query: 25 NLV-HIGKIALQSGASG-LTVHPRPDQRHIRYTDLPEIRRLIDEQFPKAELN---IEGYP 79
NLV HI + +QSG++ L + R R Y +L +R+ I E P L I G+P
Sbjct: 320 NLVEHI-HLPVQSGSTEVLKIMARKYTRE-SYLEL--VRK-IKEAIPNVALTTDIIVGFP 374
Query: 80 NET 82
NET
Sbjct: 375 NET 377
>gnl|CDD|180156 PRK05593, rplR, 50S ribosomal protein L18; Reviewed.
Length = 117
Score = 26.7 bits (60), Expect = 7.2
Identities = 8/19 (42%), Positives = 10/19 (52%)
Query: 222 VGHAFAATALECGVKEAVF 240
VG A A G+K+ VF
Sbjct: 74 VGKLIAERAKAKGIKQVVF 92
>gnl|CDD|149480 pfam08433, KTI12, Chromatin associated protein KTI12. This is a
family of chromatin associated proteins which interact
with the Elongator complex, a component of the
elongating form of RNA polymerase II. The Elongator
complex has histone acetyltransferase activity.
Length = 266
Score = 26.5 bits (59), Expect = 7.7
Identities = 13/69 (18%), Positives = 23/69 (33%), Gaps = 15/69 (21%)
Query: 72 ELNIEG----YPNETFLNLCERYKPEQ---------ITLVPDDPHQLTSDHGWDFLQNQA 118
+ N E +P+E L +R++ T++ D L D L ++
Sbjct: 112 KWNEERGEPSWPDELLDQLYQRFEEPNSKNRWDSPLFTVLDD--EDLPLDEILKALIEKS 169
Query: 119 LLTKTVARL 127
L A
Sbjct: 170 KLPPNQATQ 178
>gnl|CDD|132656 TIGR03617, F420_MSMEG_2256, probable F420-dependent oxidoreductase,
MSMEG_2256 family. Coenzyme F420 has a limited
phylogenetic distribution, including methanogenic
archaea, Mycobacterium tuberculosis and related species,
Colwellia psychrerythraea 34H, Rhodopseudomonas
palustris HaA2, and others. Partial phylogenetic
profiling identifies protein subfamilies, within the
larger family called luciferase-like monooxygenanases
(pfam00296), that appear only in F420-positive genomes
and are likely to be F420-dependent. This model
describes one such subfamily, exemplified by MSMEG_2256
from Mycobacterium smegmatis.
Length = 318
Score = 26.2 bits (58), Expect = 8.2
Identities = 11/25 (44%), Positives = 14/25 (56%)
Query: 38 ASGLTVHPRPDQRHIRYTDLPEIRR 62
A GL VHP R++R LP + R
Sbjct: 159 ADGLLVHPFTSARYLREVTLPALAR 183
>gnl|CDD|183465 PRK12353, PRK12353, putative amino acid kinase; Reviewed.
Length = 314
Score = 26.3 bits (59), Expect = 8.8
Identities = 7/26 (26%), Positives = 14/26 (53%), Gaps = 1/26 (3%)
Query: 46 RPDQRHIRYTDLPEIRRLIDE-QFPK 70
+P+Q+ + + E + I+E QF
Sbjct: 245 KPNQKKLDEVTVSEAEKYIEEGQFAP 270
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
0.320 0.136 0.412
Gapped
Lambda K H
0.267 0.0692 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 4,255,581
Number of extensions: 266521
Number of successful extensions: 580
Number of sequences better than 10.0: 1
Number of HSP's gapped: 573
Number of HSP's successfully gapped: 26
Length of query: 261
Length of database: 5,994,473
Length adjustment: 91
Effective length of query: 170
Effective length of database: 4,028,145
Effective search space: 684784650
Effective search space used: 684784650
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: 56 (25.4 bits)