RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780438|ref|YP_003064851.1| pyridoxine 5'-phosphate
synthase [Candidatus Liberibacter asiaticus str. psy62]
(261 letters)
>1m5w_A Pyridoxal phosphate biosynthetic protein PDXJ; TIM barrel,
protein-substrate complex, multi-binding states; HET:
DXP; 1.96A {Escherichia coli} SCOP: c.1.24.1 PDB: 1ho1_A
1ho4_A* 1ixn_A* 1ixo_A* 1ixp_A 1ixq_A 3f4n_A*
Length = 243
Score = 212 bits (542), Expect = 4e-56
Identities = 82/240 (34%), Positives = 129/240 (53%), Gaps = 9/240 (3%)
Query: 6 SVNLNAVAVLRNRRNLPWPNLVHIGKIALQSGASGLTVHPRPDQRHIRYTDLPEIRRLID 65
VN++ +A LRN R +P+ V IA Q+GA G+TVH R D+RHI D+ +R+ +D
Sbjct: 7 GVNIDHIATLRNARGTAYPDPVQAAFIAEQAGADGITVHLREDRRHITDRDVRILRQTLD 66
Query: 66 EQFPKAELNIEGYPNETFLNLCERYKPEQITLVPDDPHQLTSDHGWDFLQNQALLTKTVA 125
+ N+E E L + KP LVP+ ++T++ G D + +
Sbjct: 67 TRM-----NLEMAVTEEMLAIAVETKPHFCCLVPEKRQEVTTEGGLDVAGQRDKMRDACK 121
Query: 126 RLHNLGSRISLFADGNGNEHSLQAAKLTGADCIELYTGPYGACYNNPQQERIFLNKLAIT 185
RL + G ++SLF D +E ++AA GA IE++TG Y + +Q + L ++A
Sbjct: 122 RLADAGIQVSLFID--ADEEQIKAAAEVGAPFIEIHTGCYADAKTDAEQAQE-LARIAKA 178
Query: 186 AQLAQKMDLQINAGHDLTIQNIPNLINAIPYISEISVGHAFAATALECGVKEAVFCFRRA 245
A A + L++NAGH LT N+ I AIP + E+++GHA A+ G+K+AV +R
Sbjct: 179 ATFAASLGLKVNAGHGLTYHNVK-AIAAIPEMHELNIGHAIIGRAVMTGLKDAVAEMKRL 237
>3o6c_A PNP synthase, pyridoxine 5'-phosphate synthase; structural
genomics, IDP90671, center for structural genomic
infectious diseases; HET: MSE; 1.87A {Campylobacter
jejuni subsp} PDB: 3o6d_A*
Length = 260
Score = 207 bits (527), Expect = 3e-54
Identities = 70/263 (26%), Positives = 126/263 (47%), Gaps = 33/263 (12%)
Query: 6 SVNLNAVAVLRNRRNLPWPNLVHIGKIALQSGASGLTVHPRPDQRHIRYTDLPEIRRLID 65
VN++ +AVLR R + P+L+ I + G +T+H R D+RH + DL I
Sbjct: 7 GVNIDHIAVLRQARMVNDPDLLEAAFIVARHGD-QITLHVREDRRHAQDFDLENII---- 61
Query: 66 EQFPKAELNIEGYPNETFLNLCERYKPEQITLVPDDPHQLTSDHGWDFLQNQALLTKTVA 125
+F K+ +N+E N+ LNL + KP ++TLVP+ +LT++ G N A L +++
Sbjct: 62 -KFCKSPVNLECALNDEILNLALKLKPHRVTLVPEKREELTTEGGLC--LNHAKLKQSIE 118
Query: 126 RLHNLGSRISLFADGNGNEHSLQAAKLTGADCIELYTGPYGACYNNPQQERIF------- 178
+L N +SLF + + + ++ +K+ A IEL+TG Y +N
Sbjct: 119 KLQNANIEVSLFINPSLED--IEKSKILKAQFIELHTGHYANLHNALFSNISHTAFALKE 176
Query: 179 ---------------LNKLAITAQLAQKMDLQINAGHDLTIQNIPNLINAIPYISEISVG 223
L L + A+ ++ L++ AGH L +N+ + I I E+++G
Sbjct: 177 LDQDKKTLQAQFEKELQNLELCAKKGLELGLKVAAGHGLNYKNVK-PVVKIKEICELNIG 235
Query: 224 HAFAATALECGVKEAVFCFRRAC 246
+ A ++ G++ A+ +
Sbjct: 236 QSIVARSVFTGLQNAILEMKELI 258
>3gk0_A PNP synthase, pyridoxine 5'-phosphate synthase; decode, ssgcid,
niaid, SBRI, cytoplasm, pyridoxine biosynthesis,
transferase; HET: DXP; 2.28A {Burkholderia pseudomallei}
Length = 278
Score = 187 bits (476), Expect = 2e-48
Identities = 75/240 (31%), Positives = 122/240 (50%), Gaps = 9/240 (3%)
Query: 6 SVNLNAVAVLRNRRNLPWPNLVHIGKIALQSGASGLTVHPRPDQRHIRYTDLPEIRRLID 65
VN++ VA LRN R +P+ V A +GA +T+H R D+RHI D+ +R
Sbjct: 35 GVNIDHVATLRNARGTAYPDPVRAALAAEDAGADAITLHLREDRRHIVDADVRTLR---- 90
Query: 66 EQFPKAELNIEGYPNETFLNLCERYKPEQITLVPDDPHQLTSDHGWDFLQNQALLTKTVA 125
K +N+E L++ +P LVP+ +LT++ G D + + +
Sbjct: 91 -PRVKTRMNLECAVTPEMLDIACEIRPHDACLVPEKRSELTTEGGLDVVGHFDAVRAACK 149
Query: 126 RLHNLGSRISLFADGNGNEHSLQAAKLTGADCIELYTGPYGACYNNPQQERIFLNKLAIT 185
+L + G R+SLF + +E ++AA TGA IEL+TG Y ++ +Q+R ++A
Sbjct: 150 QLADAGVRVSLFI--DPDEAQIRAAHETGAPVIELHTGRYADAHDAAEQQRE-FERIATG 206
Query: 186 AQLAQKMDLQINAGHDLTIQNIPNLINAIPYISEISVGHAFAATALECGVKEAVFCFRRA 245
+ L++NAGH L N+ I A+P I+E+++GHA A A+ G AV +
Sbjct: 207 VDAGIALGLKVNAGHGLHYTNVQ-AIAALPGIAELNIGHAIVAHAVFVGWDNAVREMKAI 265
>3mgd_A Predicted acetyltransferase; structural genomics, PSI-2, protein
structure initiative, no structural genomics consortium,
NESG; HET: ACO; 1.90A {Clostridium acetobutylicum}
Length = 157
Score = 35.0 bits (80), Expect = 0.019
Identities = 12/123 (9%), Positives = 33/123 (26%), Gaps = 8/123 (6%)
Query: 50 RHIRYTDLPEIRRLIDEQFPKAELNIEGYPNETFLNLCERY--KPEQITLVPDDPHQLTS 107
R D+ + + Q + ++ + + ++ +Q+ +
Sbjct: 5 RKADMKDISLLVSIRKRQLIDEGIEPNIDIDKELTRYFNNKLANNLLVEWIAEENNQIIA 64
Query: 108 DHGWDFLQNQALL---TKTVARLHNLGSRISLFADGNGN---EHSLQAAKLTGADCIELY 161
F+ T + N+ + + +G + + AK I L
Sbjct: 65 TAAIAFIDFPPTYTNKTGRKGYITNMYTEPTSRGNGIATGMLDRLVNEAKERNIHKICLV 124
Query: 162 TGP 164
Sbjct: 125 ASK 127
>3i3g_A N-acetyltransferase; malaria, structural genomics, structural
genomics consortium, SGC,; 1.86A {Trypanosoma brucei}
PDB: 3fb3_A
Length = 161
Score = 31.7 bits (71), Expect = 0.17
Identities = 12/118 (10%), Positives = 29/118 (24%), Gaps = 5/118 (4%)
Query: 50 RHIRYTDLPEIRRLIDEQFPKAELNIEGYPNETFLNLCERYKPEQITLVPDDPHQLTSDH 109
R + +DL L+ L+ ++ R ++
Sbjct: 24 RVLEESDLSSHLELLGHLTEAPPLSGVEL--ANIADMRRRAGIVTKVFCHQPTGRIVGSA 81
Query: 110 GWDFLQNQALLTKTVARLHNLGSRISLFADGNGN---EHSLQAAKLTGADCIELYTGP 164
+ V + ++ S G G + ++ G + L +
Sbjct: 82 SLMIQPKFTRGGRAVGHIEDVVVDPSYRGAGLGKALIMDLCEISRSKGCYKVILDSSE 139
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 30.4 bits (67), Expect = 0.43
Identities = 12/39 (30%), Positives = 18/39 (46%), Gaps = 11/39 (28%)
Query: 115 QNQALLTKTVARLHNLGSRISLFADGNGNEHSLQAAKLT 153
+ QAL K L + + L+AD + +L A K T
Sbjct: 18 EKQAL--K------KLQASLKLYADDSAP--AL-AIKAT 45
>1sxd_A GA repeat binding protein, alpha; alpha helical, transcription,
signaling protein; NMR {Mus musculus} SCOP: a.60.1.1
Length = 91
Score = 29.4 bits (66), Expect = 0.88
Identities = 9/30 (30%), Positives = 15/30 (50%), Gaps = 1/30 (3%)
Query: 87 CERYKPEQITL-VPDDPHQLTSDHGWDFLQ 115
E Y+ EQ L +P DP ++D ++
Sbjct: 7 LEGYRKEQERLGIPYDPIHWSTDQVLHWVV 36
>3hj4_A Minor editosome-associated tutase; nucleotidyltransferase, RNA
UTP-binding, transferase; 1.56A {Trypanosoma brucei}
PDB: 3hiy_A 3hj1_A*
Length = 384
Score = 28.3 bits (62), Expect = 1.9
Identities = 4/33 (12%), Positives = 11/33 (33%)
Query: 43 VHPRPDQRHIRYTDLPEIRRLIDEQFPKAELNI 75
P P+ + + + + KA + +
Sbjct: 18 SLPPPEHSVVIHELQKRVLDIGMLAVNKAHVEL 50
>1xp3_A Endonuclease IV; NFO, DNA replication, DNA recombination, DNA
repair, spine, structural genomics, structural
proteomics in europe, hydrolase; 2.57A {Bacillus
anthracis} SCOP: c.1.15.1
Length = 307
Score = 27.8 bits (61), Expect = 2.8
Identities = 11/46 (23%), Positives = 17/46 (36%), Gaps = 8/46 (17%)
Query: 129 NLGSRISLFADGNGNEHSLQAAKLTGADCIELYTGPYGACYNNPQQ 174
+GS +S + + + A GA +YTG PQ
Sbjct: 12 KIGSHVS-MSGKKMLLAASEEAVSYGATTFMIYTG-------APQN 49
>3nyb_A Poly(A) RNA polymerase protein 2; polya RNA polymerase, zinc
knuckle protein, RNA surveillance binds to TRF4P/AIR2P
heterodimer; 2.70A {Saccharomyces cerevisiae}
Length = 323
Score = 27.7 bits (61), Expect = 2.9
Identities = 11/43 (25%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 43 VHPRPDQRHIRYTDLPEIRRLIDEQFPKAELNIEG-YPNETFL 84
+ P ++ IR + IR + + +P A+L++ G Y + +L
Sbjct: 32 ISPSREEIEIRNQTISTIREAVKQLWPDADLHVFGSYSTDLYL 74
>2jbm_A Nicotinate-nucleotide pyrophosphorylase; NAD, enzyme, metabolism,
transferase, polymorphism, glycosyltransferase, pyridine
nucleotide biosynthesis; HET: SRT; 2.0A {Homo sapiens}
Length = 299
Score = 27.4 bits (60), Expect = 3.7
Identities = 9/48 (18%), Positives = 13/48 (27%), Gaps = 1/48 (2%)
Query: 111 WDFLQNQALLTKTVARLHNLGSRISLFADGNGNEHSLQAAKLTGADCI 158
D L T L +++ A G +L D I
Sbjct: 223 LDN-FKPEELHPTATVLKAQFPSVAVEASGGITLDNLPQFCGPHIDVI 269
>1qsm_A HPA2 histone acetyltransferase; protein-acetyl coenzyme A complex;
HET: ACO; 2.40A {Saccharomyces cerevisiae} SCOP:
d.108.1.1 PDB: 1qso_A
Length = 152
Score = 27.1 bits (59), Expect = 4.2
Identities = 14/118 (11%), Positives = 29/118 (24%), Gaps = 6/118 (5%)
Query: 50 RHIRYTDLPEIRRLIDE--QFPKAELNIEGYPNETFLNLCERYKPEQITLVPDDPHQLTS 107
R + D +RL F + + + F + + + +
Sbjct: 8 RFVTENDKEGWQRLWKSYQDFYEVSFPDDLD-DFNFGRFLDPNIKMWAAVAVESSSEKII 66
Query: 108 DHGWDFLQNQALLTKTVARLHNLGSRIS---LFADGNGNEHSLQAAKLTGADCIELYT 162
F K +++L + A G + A G + T
Sbjct: 67 GMINFFNHMTTWDFKDKIYINDLYVDENSRVKGAGGKLIQFVYDEADKLGTPSVYWCT 124
>1qpo_A Quinolinate acid phosphoribosyl transferase; type II prtase, de
novo NAD biosynthesis, PRPP, quinolinic acid; 2.40A
{Mycobacterium tuberculosis H37RV} SCOP: c.1.17.1
d.41.2.1 PDB: 1qpn_A 1qpq_A* 1qpr_A*
Length = 284
Score = 26.9 bits (59), Expect = 4.2
Identities = 7/39 (17%), Positives = 13/39 (33%)
Query: 120 LTKTVARLHNLGSRISLFADGNGNEHSLQAAKLTGADCI 158
V R + + L + G + + TG D +
Sbjct: 228 TQTAVQRRDSRAPTVMLESSGGLSLQTAATYAETGVDYL 266
>2eui_A Probable acetyltransferase; dimer, structural genomics, PSI,
protein structure initiative; 2.80A {Pseudomonas
aeruginosa PAO1} SCOP: d.108.1.1
Length = 153
Score = 27.1 bits (59), Expect = 4.3
Identities = 17/124 (13%), Positives = 32/124 (25%), Gaps = 15/124 (12%)
Query: 50 RHIRYTDLPEIRRLIDE--QFPKAELNIEGYPNETFLNLCERYKPEQITLVPDDPH---- 103
L + L + +F E L + + L ++
Sbjct: 4 VQATLEHLDLLAPLFVKYREFYGMLSYPESSRKFLEKRLRRKESVIYLALADEEDRLLGF 63
Query: 104 -QLTSDHGWDFLQNQALLTKTVARLHNLGSRI--SLFADGNGNEHSLQAAKLTGADCIEL 160
QL L+ +L + L +H+ Q A+ T A + +
Sbjct: 64 CQLYPSFSSLSLKRVWILNDIYVAEEARRQLVADHLL------QHAKQMARETHAVRMRV 117
Query: 161 YTGP 164
T
Sbjct: 118 STSV 121
>2i8d_A Uncharacterized conserved protein of COG5646; ZP_00384875.1,
structural genomics, PSI-2, protein structure
initiative; HET: MSE UNL; 1.69A {Lactobacillus casei}
SCOP: d.198.4.1
Length = 123
Score = 26.8 bits (59), Expect = 5.3
Identities = 7/31 (22%), Positives = 12/31 (38%), Gaps = 4/31 (12%)
Query: 45 PRPDQRHIRYTDLPEIRRLIDEQFPKAELNI 75
P PD + + + QFP+ +L
Sbjct: 13 PTPDDLTR----VESLFANMQAQFPQLKLEF 39
>2qwu_A Intracellular growth locus, subunit C; structure, IGLC, cell
invasion; 1.65A {Francisella tularensis subsp}
Length = 211
Score = 26.6 bits (58), Expect = 5.7
Identities = 15/53 (28%), Positives = 27/53 (50%), Gaps = 1/53 (1%)
Query: 151 KLTGADCIELYTGPYGACYNNPQQERIFLNKLAITAQLAQKMDLQINAGHDLT 203
++T + I + T P AC + R+F++ L I + K + I+ G D+T
Sbjct: 11 QVTSGETIHVRTDP-TACIGSHPNCRMFIDSLTIAGEKLDKNIVAIDGGEDVT 62
>2jv3_A ETS1 proto-oncogene; ETS-1 pointed (PNT) domain, MAP kinase
phosphorylation site, alpha-helical bundle,
transcription factor, DNA-binding, nucleus; NMR {Mus
musculus}
Length = 110
Score = 26.3 bits (58), Expect = 6.9
Identities = 10/29 (34%), Positives = 14/29 (48%), Gaps = 1/29 (3%)
Query: 88 ERYKPEQITL-VPDDPHQLTSDHGWDFLQ 115
+ EQ L +P DP Q T H D++
Sbjct: 26 SGFTKEQQRLGIPKDPRQWTETHVRDWVM 54
>3oix_A Putative dihydroorotate dehydrogenase; dihydrooro oxidase; TIM
barrel, oxidoreductase; HET: MLY FMN; 2.40A
{Streptococcus mutans}
Length = 345
Score = 26.2 bits (57), Expect = 8.0
Identities = 10/55 (18%), Positives = 13/55 (23%), Gaps = 11/55 (20%)
Query: 40 GLTVHPRPDQRHIRYTDLPEIRRLIDEQFPKAELNIEGYPNETFLNLCERYKPEQ 94
T+ R RY D +N G PN + Q
Sbjct: 80 TGTLEERAGNPQPRYADTKL-----------GSINSMGLPNLGINYYLDYVTELQ 123
>3i1m_P 30S ribosomal protein S16; ribosome structure, protein-RNA complex,
ribonucleoprotein, ribosomal protein, RNA-binding,
rRNA-binding, antibiotic resistance; 3.19A {Escherichia
coli k-12} PDB: 1p6g_P 1p87_P* 1vs7_P* 2avy_P 2aw7_P
1vs5_P 2i2u_P 2i2p_P* 2qan_P* 2qb9_P* 2qbb_P* 2qbd_P
2qbf_P 2qbh_P* 2qbj_P* 2qou_P* 2qow_P* 2qoy_P* 2qp0_P*
2vho_P ...
Length = 82
Score = 25.8 bits (57), Expect = 9.1
Identities = 9/45 (20%), Positives = 18/45 (40%), Gaps = 2/45 (4%)
Query: 83 FLNLCERYKPEQITLVPDDPHQLTSDHGWDFLQNQALLTKTVARL 127
F+ + P I ++ +L D ++ A ++ VA L
Sbjct: 32 FIERVGFFNP--IASEKEEGTRLDLDRIAHWVGQGATISDRVAAL 74
>3bbn_P Ribosomal protein S16; small ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 88
Score = 25.8 bits (57), Expect = 9.4
Identities = 11/45 (24%), Positives = 15/45 (33%), Gaps = 6/45 (13%)
Query: 83 FLNLCERYKPEQITLVPDDPHQLTSDHGWDFLQNQALLTKTVARL 127
L Y P + L DFL+ A T+TV +
Sbjct: 32 DLQKVGFYDPIK------SQTYLNVPAILDFLEKGAQPTETVYDI 70
Database: pdb70
Posted date: Jan 26, 2011 11:21 AM
Number of letters in database: 5,693,230
Number of sequences in database: 24,244
Lambda K H
0.320 0.136 0.412
Gapped
Lambda K H
0.267 0.0530 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 2,216,706
Number of extensions: 98380
Number of successful extensions: 357
Number of sequences better than 10.0: 1
Number of HSP's gapped: 344
Number of HSP's successfully gapped: 23
Length of query: 261
Length of database: 5,693,230
Length adjustment: 91
Effective length of query: 170
Effective length of database: 3,487,026
Effective search space: 592794420
Effective search space used: 592794420
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 (25.8 bits)