BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 039019
(292 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3A8T|A Chain A, Plant Adenylate Isopentenyltransferase In Complex With Atp
Length = 339
Score = 85.1 bits (209), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 60/198 (30%), Positives = 95/198 (47%), Gaps = 43/198 (21%)
Query: 18 NFRFNCCFICVDAANPVLDRYVEQRVDCMIDAGLLDEVYDIYNANAD------YTR-GLR 70
R++CCF+ VD + VL Y+ +RVD M++ G+ DE+ + Y+ + TR GLR
Sbjct: 170 ELRYDCCFLWVDVSVKVLTDYLAKRVDDMLELGMFDELAEFYSPEDEDHDEDSATRTGLR 229
Query: 71 QAIGVREFEDFLSVYHSVDRDNKTSGPTNATLNSRNKDDKTLKDCMRAILKSSADDQLKV 130
+AIGV EF+ + + D + + G +D +R +
Sbjct: 230 KAIGVPEFDRYFEKFRPGDVEGEDPG----------------RDRVR-----------RG 262
Query: 131 LLEEAIDRVKLNTRRLVRCQKRRLNRLQTLFGWDIHYVDSTESISC--------KSDEVW 182
EEA+ +K NT L + Q ++ RL+ GWD+ +D+TES K E+W
Sbjct: 263 AFEEAVRAIKENTCHLAKRQIGKILRLKGA-GWDLRRLDATESFRAAMTSDSGEKCTEIW 321
Query: 183 TAQVVGPAVKTIRAFLSE 200
QV+ P+VK + FL E
Sbjct: 322 EKQVLEPSVKIVSRFLDE 339
>pdb|3EPH|A Chain A, Crystallographic Snapshots Of Eukaryotic
Dimethylallyltransferase Acting On Trna: Insight Into
Trna Recognition And Reaction Mechanism
pdb|3EPH|B Chain B, Crystallographic Snapshots Of Eukaryotic
Dimethylallyltransferase Acting On Trna: Insight Into
Trna Recognition And Reaction Mechanism
pdb|3EPJ|A Chain A, Crystallographic Snapshots Of Eukaryotic
Dimethylallyltransferase Acting On Trna: Insight Into
Trna Recognition And Reaction Mechanism
pdb|3EPJ|B Chain B, Crystallographic Snapshots Of Eukaryotic
Dimethylallyltransferase Acting On Trna: Insight Into
Trna Recognition And Reaction Mechanism
pdb|3EPK|A Chain A, Crystallographic Snapshots Of Eukaryotic
Dimethylallyltransferase Acting On Trna: Insight Into
Trna Recognition And Reaction Mechanism
pdb|3EPK|B Chain B, Crystallographic Snapshots Of Eukaryotic
Dimethylallyltransferase Acting On Trna: Insight Into
Trna Recognition And Reaction Mechanism
pdb|3EPL|A Chain A, Crystallographic Snapshots Of Eukaryotic
Dimethylallyltransferase Acting On Trna: Insight Into
Trna Recognition And Reaction Mechanism
pdb|3EPL|B Chain B, Crystallographic Snapshots Of Eukaryotic
Dimethylallyltransferase Acting On Trna: Insight Into
Trna Recognition And Reaction Mechanism
Length = 409
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 63/265 (23%), Positives = 109/265 (41%), Gaps = 68/265 (25%)
Query: 19 FRFNCCFICVDAANPVLDRYVEQRVDCMIDAGLLDEV---YDIYNANADYT-----RGLR 70
+F+ F+ + + L + ++ RVD M++ G L E+ Y+ Y+ N +T G+
Sbjct: 185 LKFDTLFLWLYSKPEPLFQRLDDRVDDMLERGALQEIKQLYEYYSQNK-FTPEQCENGVW 243
Query: 71 QAIGVREFEDFLSVYHSVDRDNKTSGPTNATLNSRNKDDKTLKDCMRAILKSSADDQLKV 130
Q IG +EF +L+ G T DD T+K
Sbjct: 244 QVIGFKEFLPWLT------------GKT---------DDNTVK----------------- 265
Query: 131 LLEEAIDRVKLNTRRLVRCQKRRLNRLQTL-FGWDIHYVDSTESISCKSDEVWTAQVVGP 189
LE+ I+R+K TR+ + Q + + ++ DI+ +D+T+ W
Sbjct: 266 -LEDCIERMKTRTRQYAKRQVKWIKKMLIPDIKGDIYLLDATDLSQ------WDTNASQR 318
Query: 190 AVKTIRAFLS----EDERLMPNLAGMIGTSVNSTER-DLWTQYVCKAC----GDKVLR-G 239
A+ F+S + ER L ++ + ++ D WT Y C C G V+ G
Sbjct: 319 AIAISNDFISNRPIKQERAPKALEELLSKGETTMKKLDDWTHYTCNVCRNADGKNVVAIG 378
Query: 240 AYEWEQHKQGRRHRKRIYNLRKSQR 264
W+ H RRH+ NL+++ R
Sbjct: 379 EKYWKIHLGSRRHKS---NLKRNTR 400
>pdb|2QGN|A Chain A, Crystal Structure Of Trna Isopentenylpyrophosphate
Transferase (Bh2366) From Bacillus Halodurans, Northeast
Structural Genomics Consortium Target Bhr41.
pdb|3EXA|A Chain A, Crystal Structure Of The Full-Length Trna
Isopentenylpyrophosphate Transferase (Bh2366) From
Bacillus Halodurans, Northeast Structural Genomics
Consortium Target Bhr41.
pdb|3EXA|B Chain B, Crystal Structure Of The Full-Length Trna
Isopentenylpyrophosphate Transferase (Bh2366) From
Bacillus Halodurans, Northeast Structural Genomics
Consortium Target Bhr41.
pdb|3EXA|C Chain C, Crystal Structure Of The Full-Length Trna
Isopentenylpyrophosphate Transferase (Bh2366) From
Bacillus Halodurans, Northeast Structural Genomics
Consortium Target Bhr41.
pdb|3EXA|D Chain D, Crystal Structure Of The Full-Length Trna
Isopentenylpyrophosphate Transferase (Bh2366) From
Bacillus Halodurans, Northeast Structural Genomics
Consortium Target Bhr41
Length = 322
Score = 34.7 bits (78), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 34/67 (50%), Gaps = 11/67 (16%)
Query: 21 FNCCFICVDAANPVLDRYVEQRVDCMIDAGLLDEVYDIYNANADYTRGLR-----QAIGV 75
+N I + VL + +RVD ++ GL+DE +Y+ RG+R QAIG
Sbjct: 190 YNLVXIGLTXERDVLYDRINRRVDQXVEEGLIDEAKKLYD------RGIRDCQSVQAIGY 243
Query: 76 REFEDFL 82
+E D+L
Sbjct: 244 KEXYDYL 250
Score = 28.1 bits (61), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 19/46 (41%), Positives = 27/46 (58%), Gaps = 4/46 (8%)
Query: 109 DKTLKDC--MRAILKSSADDQL--KVLLEEAIDRVKLNTRRLVRCQ 150
D+ ++DC ++AI D L V LEEAID +K N+RR + Q
Sbjct: 229 DRGIRDCQSVQAIGYKEXYDYLDGNVTLEEAIDTLKRNSRRYAKRQ 274
>pdb|3GYZ|A Chain A, Crystal Structure Of Ipgc From Shigella Flexneri
pdb|3GYZ|B Chain B, Crystal Structure Of Ipgc From Shigella Flexneri
pdb|3GZ1|A Chain A, Crystal Structure Of Ipgc In Complex With The Chaperone
Binding Region Of Ipab
pdb|3GZ1|B Chain B, Crystal Structure Of Ipgc In Complex With The Chaperone
Binding Region Of Ipab
pdb|3GZ2|A Chain A, Crystal Structure Of Ipgc In Complex With An Ipab Peptide
pdb|3GZ2|B Chain B, Crystal Structure Of Ipgc In Complex With An Ipab Peptide
Length = 151
Score = 31.6 bits (70), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 22/90 (24%), Positives = 43/90 (47%), Gaps = 6/90 (6%)
Query: 55 VYDIYNANADYTRGLRQAIGVRE-FE---DFLSVYHSVDRDNKTSGPTNATLNSRNKDDK 110
+YD YN DY GL ++E F+ D +V ++ +++ T R K
Sbjct: 64 IYDFYNV--DYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFHTGQCQLRLKAPL 121
Query: 111 TLKDCMRAILKSSADDQLKVLLEEAIDRVK 140
K+C +++ S D++LK+ + +D ++
Sbjct: 122 KAKECFELVIQHSNDEKLKIKAQSYLDAIQ 151
>pdb|3KS2|A Chain A, Crystal Structure Of Type-Iii Secretion Chaperone Ipgc
From Shigella Flexneri (Residues 10-155)
pdb|3KS2|B Chain B, Crystal Structure Of Type-Iii Secretion Chaperone Ipgc
From Shigella Flexneri (Residues 10-155)
pdb|3KS2|C Chain C, Crystal Structure Of Type-Iii Secretion Chaperone Ipgc
From Shigella Flexneri (Residues 10-155)
pdb|3KS2|D Chain D, Crystal Structure Of Type-Iii Secretion Chaperone Ipgc
From Shigella Flexneri (Residues 10-155)
pdb|3KS2|E Chain E, Crystal Structure Of Type-Iii Secretion Chaperone Ipgc
From Shigella Flexneri (Residues 10-155)
pdb|3KS2|F Chain F, Crystal Structure Of Type-Iii Secretion Chaperone Ipgc
From Shigella Flexneri (Residues 10-155)
pdb|3KS2|G Chain G, Crystal Structure Of Type-Iii Secretion Chaperone Ipgc
From Shigella Flexneri (Residues 10-155)
pdb|3KS2|H Chain H, Crystal Structure Of Type-Iii Secretion Chaperone Ipgc
From Shigella Flexneri (Residues 10-155)
pdb|3KS2|I Chain I, Crystal Structure Of Type-Iii Secretion Chaperone Ipgc
From Shigella Flexneri (Residues 10-155)
pdb|3KS2|J Chain J, Crystal Structure Of Type-Iii Secretion Chaperone Ipgc
From Shigella Flexneri (Residues 10-155)
pdb|3KS2|K Chain K, Crystal Structure Of Type-Iii Secretion Chaperone Ipgc
From Shigella Flexneri (Residues 10-155)
pdb|3KS2|L Chain L, Crystal Structure Of Type-Iii Secretion Chaperone Ipgc
From Shigella Flexneri (Residues 10-155)
pdb|3KS2|M Chain M, Crystal Structure Of Type-Iii Secretion Chaperone Ipgc
From Shigella Flexneri (Residues 10-155)
pdb|3KS2|N Chain N, Crystal Structure Of Type-Iii Secretion Chaperone Ipgc
From Shigella Flexneri (Residues 10-155)
pdb|3KS2|O Chain O, Crystal Structure Of Type-Iii Secretion Chaperone Ipgc
From Shigella Flexneri (Residues 10-155)
pdb|3KS2|P Chain P, Crystal Structure Of Type-Iii Secretion Chaperone Ipgc
From Shigella Flexneri (Residues 10-155)
pdb|3KS2|Q Chain Q, Crystal Structure Of Type-Iii Secretion Chaperone Ipgc
From Shigella Flexneri (Residues 10-155)
pdb|3KS2|R Chain R, Crystal Structure Of Type-Iii Secretion Chaperone Ipgc
From Shigella Flexneri (Residues 10-155)
Length = 151
Score = 31.6 bits (70), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 22/90 (24%), Positives = 43/90 (47%), Gaps = 6/90 (6%)
Query: 55 VYDIYNANADYTRGLRQAIGVRE-FE---DFLSVYHSVDRDNKTSGPTNATLNSRNKDDK 110
+YD YN DY GL ++E F+ D +V ++ +++ T R K
Sbjct: 60 IYDFYNV--DYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFHTGQCQLRLKAPL 117
Query: 111 TLKDCMRAILKSSADDQLKVLLEEAIDRVK 140
K+C +++ S D++LK+ + +D ++
Sbjct: 118 KAKECFELVIQHSNDEKLKIKAQSYLDAIQ 147
>pdb|1NW8|A Chain A, Structure Of L72p Mutant Beta Class N6-Adenine Dna
Methyltransferase Rsri
Length = 319
Score = 30.8 bits (68), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 28/49 (57%), Gaps = 3/49 (6%)
Query: 26 ICVDAANPVLDRYVEQRVDCMIDAGLLDEV--YDIYNANADYTRGLRQA 72
IC DAA PV Y ++++ + D GL+D+ Y+I A++ L++
Sbjct: 268 ICTDAA-PVFKEYYQKQLTFLQDDGLIDKARSYEIVEGAANFGAALQRG 315
>pdb|1EG2|A Chain A, Crystal Structure Of Rhodobacter Spheroides (N6 Adenosine)
Methyltransferase (M.Rsri)
pdb|1NW5|A Chain A, Structure Of The Beta Class N6-Adenine Dna
Methyltransferase Rsri Bound To S-Adenosylmethionine
pdb|1NW6|A Chain A, Structure Of The Beta Class N6-Adenine Dna
Methyltransferase Rsri Bound To Sinefungin
pdb|1NW7|A Chain A, Structure Of The Beta Class N6-adenine Dna
Methyltransferase Rsri Bound To
S-adenosyl-l-homocysteine
Length = 319
Score = 30.8 bits (68), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 28/49 (57%), Gaps = 3/49 (6%)
Query: 26 ICVDAANPVLDRYVEQRVDCMIDAGLLDEV--YDIYNANADYTRGLRQA 72
IC DAA PV Y ++++ + D GL+D+ Y+I A++ L++
Sbjct: 268 ICTDAA-PVFKEYYQKQLTFLQDDGLIDKARSYEIVEGAANFGAALQRG 315
>pdb|4D8F|A Chain A, Chlamydia Trachomatis Nrdb With A MnFE COFACTOR (PROCEDURE
1 - High Mn)
pdb|4D8F|B Chain B, Chlamydia Trachomatis Nrdb With A MnFE COFACTOR (PROCEDURE
1 - High Mn)
pdb|4D8F|C Chain C, Chlamydia Trachomatis Nrdb With A MnFE COFACTOR (PROCEDURE
1 - High Mn)
pdb|4D8F|D Chain D, Chlamydia Trachomatis Nrdb With A MnFE COFACTOR (PROCEDURE
1 - High Mn)
pdb|4D8G|A Chain A, Chlamydia Trachomatis Nrdb With A MnFE COFACTOR (PROCEDURE
2 - Low Mn)
pdb|4D8G|B Chain B, Chlamydia Trachomatis Nrdb With A MnFE COFACTOR (PROCEDURE
2 - Low Mn)
pdb|4D8G|C Chain C, Chlamydia Trachomatis Nrdb With A MnFE COFACTOR (PROCEDURE
2 - Low Mn)
pdb|4D8G|D Chain D, Chlamydia Trachomatis Nrdb With A MnFE COFACTOR (PROCEDURE
2 - Low Mn)
Length = 366
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 40/70 (57%), Gaps = 10/70 (14%)
Query: 138 RVKLNTRRLVRCQKRRLNRLQTL---FGWDIHYVDSTESISCKSDEVWTAQVVGPAVKTI 194
RV LN++RLV C + +N+L + + W+ HY++ C ++ + T +G ++
Sbjct: 32 RVNLNSKRLVNCNQVDVNQLVPIKYKWAWE-HYLN-----GCANNWLPTEIPMGKDIELW 85
Query: 195 RA-FLSEDER 203
++ LSEDER
Sbjct: 86 KSDRLSEDER 95
>pdb|2ANI|A Chain A, Crystal Structure Of The F127y Mutant Of Ribonucleotide
Reductase R2 From Chlamydia Trachomatis
Length = 346
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 47/84 (55%), Gaps = 13/84 (15%)
Query: 138 RVKLNTRRLVRCQKRRLNRLQTL---FGWDIHYVDSTESISCKSDEVWTAQVVGPAVKTI 194
RV LN++RLV C + +N+L + + W+ HY++ C ++ + T +G ++
Sbjct: 12 RVNLNSKRLVNCNQVDVNQLVPIKYKWAWE-HYLN-----GCANNWLPTEIPMGKDIELW 65
Query: 195 RA-FLSEDER--LMPNLAGMIGTS 215
++ LSEDER ++ NL G T+
Sbjct: 66 KSDRLSEDERRVILLNL-GFFSTA 88
>pdb|1SYY|A Chain A, Crystal Structure Of The R2 Subunit Of Ribonucleotide
Reductase From Chlamydia Trachomatis
Length = 346
Score = 29.6 bits (65), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 47/84 (55%), Gaps = 13/84 (15%)
Query: 138 RVKLNTRRLVRCQKRRLNRLQTL---FGWDIHYVDSTESISCKSDEVWTAQVVGPAVKTI 194
RV LN++RLV C + +N+L + + W+ HY++ C ++ + T +G ++
Sbjct: 12 RVNLNSKRLVNCNQVDVNQLVPIKYKWAWE-HYLN-----GCANNWLPTEIPMGKDIELW 65
Query: 195 RA-FLSEDER--LMPNLAGMIGTS 215
++ LSEDER ++ NL G T+
Sbjct: 66 KSDRLSEDERRVILLNL-GFFSTA 88
>pdb|3C2R|A Chain A, Crystal Structure Of The Quinolinate Phosphoribosyl
Transferase (Bna6) From Sachharomyces Cerevisiae
Complexed With The Inhibitor Phthalate
pdb|3C2R|B Chain B, Crystal Structure Of The Quinolinate Phosphoribosyl
Transferase (Bna6) From Sachharomyces Cerevisiae
Complexed With The Inhibitor Phthalate
Length = 295
Score = 27.3 bits (59), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 26/63 (41%), Gaps = 12/63 (19%)
Query: 152 RRLNRLQTLFGW-DIHYVDSTESISCKSDEVWTAQVVGPAVKTIRAF-----------LS 199
RRL + L G D H D + + K + +W + AVK RA LS
Sbjct: 150 RRLEKYSMLVGGCDTHRYDLSSMVMLKDNHIWATGSITNAVKNARAVCGFAVKIEVECLS 209
Query: 200 EDE 202
EDE
Sbjct: 210 EDE 212
>pdb|3C2E|A Chain A, Crystal Structure At 1.9a Of The Apo Quinolinate
Phosphoribosyl Transferase (Bna6) From Saccharomyces
Cerevisiae
pdb|3C2O|A Chain A, Crystal Structure Of The Quinolinate Phosphoribosyl
Transferase (Bna6) From Sachharomyces Cerevisiae
Complexed With Quinolinate
pdb|3C2F|A Chain A, Crystal Structure Of The Quinolinate Phosphoribosyl
Transferase (Bna6) From Saccharomyces Cerevisiae
Complexed With Prpp
pdb|3C2V|A Chain A, Crystal Structure Of The Quinolinate Phosphoribosyl
Transferase (Bna6) From Saccharomyces Cerevisiae
Complexed With Prpp And The Inhibitor Phthalate
Length = 294
Score = 27.3 bits (59), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 26/63 (41%), Gaps = 12/63 (19%)
Query: 152 RRLNRLQTLFGW-DIHYVDSTESISCKSDEVWTAQVVGPAVKTIRAF-----------LS 199
RRL + L G D H D + + K + +W + AVK RA LS
Sbjct: 149 RRLEKYSMLVGGCDTHRYDLSSMVMLKDNHIWATGSITNAVKNARAVCGFAVKIEVECLS 208
Query: 200 EDE 202
EDE
Sbjct: 209 EDE 211
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.321 0.133 0.401
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,227,749
Number of Sequences: 62578
Number of extensions: 328592
Number of successful extensions: 781
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 775
Number of HSP's gapped (non-prelim): 13
length of query: 292
length of database: 14,973,337
effective HSP length: 98
effective length of query: 194
effective length of database: 8,840,693
effective search space: 1715094442
effective search space used: 1715094442
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (24.3 bits)