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= psy6230
(699 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ZZF|A Chain A, Crystal Structure Of Alanyl-Trna Synthetase Without
Oligomerization Domain
pdb|2ZZG|A Chain A, Crystal Structure Of Alanyl-Trna Synthetase In Complex
With 5''-O-(N-(L-Alanyl)-Sulfamyoxyl) Adenine Without
Oligomerization Domain
pdb|2ZZG|B Chain B, Crystal Structure Of Alanyl-Trna Synthetase In Complex
With 5''-O-(N-(L-Alanyl)-Sulfamyoxyl) Adenine Without
Oligomerization Domain
Length = 752
Score = 60.1 bits (144), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 48/163 (29%), Positives = 69/163 (42%), Gaps = 17/163 (10%)
Query: 329 RRRPIMSNHTATHILNHALRFVLGPEADQKGSLVAPDRLRFDFTNKGAMTADQVKKAEAE 388
RR M +HT TH+L AL VLG Q GS + D R D ++ ++ +++K+ E
Sbjct: 605 RRIQHMRHHTGTHVLMGALVRVLGRHVWQAGSQLTTDWARLDISHYKRISEEELKEIEML 664
Query: 389 VIRIVQTKKPVYAKLCSLADAKKIKGLRAMFDETYPD-PVRVVCVGTPVEQLESEPESQA 447
RIV + V + A++ G R P +RVV +
Sbjct: 665 ANRIVMEDRKVTWEWLPRTTAEQKYGFRLYQGGVVPGREIRVVKIE-------------- 710
Query: 448 GMETSVEFCGGTHLAMAHHVGDFCISSEEAIAKGIRRIVALSG 490
+ V+ CGGTHL VG I E I G+ RI+ G
Sbjct: 711 --DWDVQACGGTHLPSTGLVGPIKILRTERIQDGVERIIFACG 751
Score = 32.3 bits (72), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 20/41 (48%)
Query: 126 ETSVEFCGGTHLAMAHHVGDFCISSEEAIAKGIRRIVALSG 166
+ V+ CGGTHL VG I E I G+ RI+ G
Sbjct: 711 DWDVQACGGTHLPSTGLVGPIKILRTERIQDGVERIIFACG 751
>pdb|2ZZE|A Chain A, Crystal Structure Of Alanyl-Trna Synthetase Without
Oligomerization Domain In Lysine-Methylated Form
pdb|2ZZE|B Chain B, Crystal Structure Of Alanyl-Trna Synthetase Without
Oligomerization Domain In Lysine-Methylated Form
Length = 752
Score = 50.4 bits (119), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 46/163 (28%), Positives = 67/163 (41%), Gaps = 17/163 (10%)
Query: 329 RRRPIMSNHTATHILNHALRFVLGPEADQKGSLVAPDRLRFDFTNKGAMTADQVKKAEAE 388
RR M +HT TH+L AL VLG Q GS + D R D ++ ++ +++ + E
Sbjct: 605 RRIQHMRHHTGTHVLMGALVRVLGRHVWQAGSQLTTDWARLDISHYXRISEEELXEIEML 664
Query: 389 VIRIVQTKKPVYAKLCSLADAKKIKGLRAMFDETYPD-PVRVVCVGTPVEQLESEPESQA 447
RIV + V + A++ G R P +RVV +
Sbjct: 665 ANRIVMEDRXVTWEWLPRTTAEQXYGFRLYQGGVVPGREIRVVXIE-------------- 710
Query: 448 GMETSVEFCGGTHLAMAHHVGDFCISSEEAIAKGIRRIVALSG 490
+ V+ GGTHL VG I E I G+ RI+ G
Sbjct: 711 --DWDVQAXGGTHLPSTGLVGPIXILRTERIQDGVERIIFACG 751
>pdb|2ZTG|A Chain A, Crystal Structure Of Archaeoglobus Fulgidus Alanyl-Trna
Synthetase Lacking The C-Terminal Dimerization Domain In
Complex With Ala-Sa
Length = 739
Score = 43.9 bits (102), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 45/175 (25%), Positives = 74/175 (42%), Gaps = 18/175 (10%)
Query: 317 TGGRSEGIPGSARRRPIMSNHTATHILNHALRFVLGPEADQKGSLVAPDRLRFDFTNKGA 376
G + +G+ S R +H+ATH+L ++L+ VLG Q G+ + R D T+
Sbjct: 580 VGTKVKGVIDSDVRWRHXRHHSATHVLLYSLQKVLGNHVWQAGARKEFSKARLDVTHFRR 639
Query: 377 MTADQVKKAEAEVIRIVQTKKPVYAKLCSLADAKKIKGLRAMFDETYPD-PVRVVCVGTP 435
+ +++K+ E R + KP+ + +A++ G R P +RVV VG
Sbjct: 640 PSEEEIKEIEXLANREILANKPIKWEWXDRIEAERKFGFRLYQGGVPPGRKIRVVQVGDD 699
Query: 436 VEQLESEPESQAGMETSVEFCGGTHLAMAHHVGDFCISSEEAIAKGIRRIVALSG 490
V+ CGGTH +G I E+I G+ R +G
Sbjct: 700 VQA-----------------CGGTHCRSTGEIGXLKILKVESIQDGVIRFEFAAG 737
>pdb|2OKK|A Chain A, The X-Ray Crystal Structure Of The 65kda Isoform Of
Glutamic Acid Decarboxylase (Gad65)
Length = 497
Score = 31.6 bits (70), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 27/60 (45%), Gaps = 11/60 (18%)
Query: 312 EICAWTGGRSEGI--PGSARRRPIMSNHTATHILNHALRFVLGPEADQKGSLVAPDRLRF 369
EI W GG +GI PG A +SN A I RF + PE +KG P + F
Sbjct: 139 EIIGWPGGSGDGIFSPGGA-----ISNMYAMMI----ARFKMFPEVKEKGMAALPRLIAF 189
>pdb|4F84|A Chain A, Structure Analysis Of Geranyl Diphosphate
Methyltransferase In Complex With Sam
pdb|4F85|A Chain A, Structure Analysis Of Geranyl Diphosphate
Methyltransferase
pdb|4F86|A Chain A, Structure Analysis Of Geranyl Diphosphate
Methyltransferase In Complex With Gpp And Sinefungin
pdb|4F86|B Chain B, Structure Analysis Of Geranyl Diphosphate
Methyltransferase In Complex With Gpp And Sinefungin
pdb|4F86|C Chain C, Structure Analysis Of Geranyl Diphosphate
Methyltransferase In Complex With Gpp And Sinefungin
pdb|4F86|D Chain D, Structure Analysis Of Geranyl Diphosphate
Methyltransferase In Complex With Gpp And Sinefungin
pdb|4F86|E Chain E, Structure Analysis Of Geranyl Diphosphate
Methyltransferase In Complex With Gpp And Sinefungin
pdb|4F86|F Chain F, Structure Analysis Of Geranyl Diphosphate
Methyltransferase In Complex With Gpp And Sinefungin
pdb|4F86|G Chain G, Structure Analysis Of Geranyl Diphosphate
Methyltransferase In Complex With Gpp And Sinefungin
pdb|4F86|H Chain H, Structure Analysis Of Geranyl Diphosphate
Methyltransferase In Complex With Gpp And Sinefungin
pdb|4F86|I Chain I, Structure Analysis Of Geranyl Diphosphate
Methyltransferase In Complex With Gpp And Sinefungin
pdb|4F86|J Chain J, Structure Analysis Of Geranyl Diphosphate
Methyltransferase In Complex With Gpp And Sinefungin
pdb|4F86|K Chain K, Structure Analysis Of Geranyl Diphosphate
Methyltransferase In Complex With Gpp And Sinefungin
pdb|4F86|L Chain L, Structure Analysis Of Geranyl Diphosphate
Methyltransferase In Complex With Gpp And Sinefungin
Length = 320
Score = 30.8 bits (68), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 32/60 (53%), Gaps = 4/60 (6%)
Query: 196 ADSKALSKKIIDITEEIAKATLPYWKKEDLRNLLKTMKKSLDEAERLQKAAHASKVLDRV 255
AD++ + + ++D+T E TLPYW+ +L+ ++++ E+ R + DRV
Sbjct: 265 ADNRLVPQTVVDLTPE----TLPYWELRATSSLVTGIEEAFIESYRDGSFQYVLIAADRV 320
Score = 30.8 bits (68), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 32/60 (53%), Gaps = 4/60 (6%)
Query: 520 ADSKALSKKIIDITEEIAKATLPYWKKEDLRNLLKTMKKSLDEAERLQKAAHASKVLDRV 579
AD++ + + ++D+T E TLPYW+ +L+ ++++ E+ R + DRV
Sbjct: 265 ADNRLVPQTVVDLTPE----TLPYWELRATSSLVTGIEEAFIESYRDGSFQYVLIAADRV 320
>pdb|3VC1|A Chain A, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl-S- Thiolodiphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC1|B Chain B, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl-S- Thiolodiphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC1|C Chain C, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl-S- Thiolodiphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC1|D Chain D, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl-S- Thiolodiphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC1|E Chain E, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl-S- Thiolodiphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC1|F Chain F, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl-S- Thiolodiphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC1|G Chain G, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl-S- Thiolodiphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC1|H Chain H, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl-S- Thiolodiphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC1|I Chain I, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl-S- Thiolodiphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC1|J Chain J, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl-S- Thiolodiphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC1|K Chain K, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl-S- Thiolodiphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC1|L Chain L, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl-S- Thiolodiphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC2|A Chain A, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl Diphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC2|B Chain B, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl Diphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC2|C Chain C, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl Diphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC2|D Chain D, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl Diphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC2|E Chain E, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl Diphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC2|F Chain F, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl Diphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC2|G Chain G, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl Diphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC2|H Chain H, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl Diphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC2|I Chain I, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl Diphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC2|J Chain J, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl Diphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC2|K Chain K, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl Diphosphate, And
S-Adenosyl-L-Homocysteine
pdb|3VC2|L Chain L, Crystal Structure Of Geranyl Diphosphate
C-Methyltransferase From Streptomyces Coelicolor A3(2)
In Complex With Mg2+, Geranyl Diphosphate, And
S-Adenosyl-L-Homocysteine
Length = 312
Score = 30.0 bits (66), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 31/60 (51%), Gaps = 4/60 (6%)
Query: 196 ADSKALSKKIIDITEEIAKATLPYWKKEDLRNLLKTMKKSLDEAERLQKAAHASKVLDRV 255
AD++ + I+D+T + TLPYW+ +L+ ++K+ E+ R + DRV
Sbjct: 257 ADNRLVPHTIVDLTPD----TLPYWELRATSSLVTGIEKAFIESYRDGSFQYVLIAADRV 312
Score = 30.0 bits (66), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 31/60 (51%), Gaps = 4/60 (6%)
Query: 520 ADSKALSKKIIDITEEIAKATLPYWKKEDLRNLLKTMKKSLDEAERLQKAAHASKVLDRV 579
AD++ + I+D+T + TLPYW+ +L+ ++K+ E+ R + DRV
Sbjct: 257 ADNRLVPHTIVDLTPD----TLPYWELRATSSLVTGIEKAFIESYRDGSFQYVLIAADRV 312
>pdb|2YJG|A Chain A, Structure Of The Lactate Racemase Apoprotein From
Thermoanaerobacterium Thermosaccharolyticum
pdb|2YJG|B Chain B, Structure Of The Lactate Racemase Apoprotein From
Thermoanaerobacterium Thermosaccharolyticum
Length = 436
Score = 29.3 bits (64), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 305 SYIEPCVEICAWTGGRSEGIPGSARRRPIMSNHTATHILN 344
+IEP ++GGR +PG A + I++NH + I N
Sbjct: 169 GFIEPHF-FAGFSGGRKSILPGIASVQCILANHCSEFIKN 207
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
0.315 0.130 0.367
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,004,306
Number of Sequences: 62578
Number of extensions: 742045
Number of successful extensions: 2508
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 2487
Number of HSP's gapped (non-prelim): 30
length of query: 699
length of database: 14,973,337
effective HSP length: 106
effective length of query: 593
effective length of database: 8,340,069
effective search space: 4945660917
effective search space used: 4945660917
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (25.8 bits)