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= psy16318
(474 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3HXU|A Chain A, Crystal Structure Of Catalytic Fragment Of E. Coli Alars
In Complex With Alasa
pdb|3HXV|A Chain A, Crystal Structure Of Catalytic Fragment Of E. Coli Alars
In Complex With Glysa
pdb|3HXW|A Chain A, Crystal Structure Of Catalytic Fragment Of E. Coli Alars
In Complex With Sersa
pdb|3HXX|A Chain A, Crystal Structure Of Catalytic Fragment Of E. Coli Alars
In Complex With Amppcp
pdb|3HXY|A Chain A, Crystal Structure Of Catalytic Fragment Of E. Coli Alars
In Complex With Amppcp, Ala-Amp And Pcp
Length = 441
Score = 48.5 bits (114), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 25/64 (39%), Positives = 37/64 (57%), Gaps = 1/64 (1%)
Query: 3 QTIAKLGESKVLPGDVAWRLYDTYGFPVDLTQLMVEEKGLSVDMEVYEDAKKKAQSEPES 62
+ +AKL L G+ A+RLYDTYGFPVDLT + E+ + VD +E A ++ +
Sbjct: 379 EELAKLS-GDTLDGETAFRLYDTYGFPVDLTADVCRERNIKVDEAGFEAAMEEQRRRARE 437
Query: 63 QAGM 66
+G
Sbjct: 438 ASGF 441
>pdb|3HXZ|A Chain A, Crystal Structure Of Catalytic Fragment Of E. Coli Alars
G237a In Complex With Alasa
pdb|3HXZ|B Chain B, Crystal Structure Of Catalytic Fragment Of E. Coli Alars
G237a In Complex With Alasa
pdb|3HXZ|C Chain C, Crystal Structure Of Catalytic Fragment Of E. Coli Alars
G237a In Complex With Alasa
pdb|3HXZ|D Chain D, Crystal Structure Of Catalytic Fragment Of E. Coli Alars
G237a In Complex With Alasa
pdb|3HY0|A Chain A, Crystal Structure Of Catalytic Fragment Of E. Coli Alars
G237a In Complex With Glysa
pdb|3HY0|B Chain B, Crystal Structure Of Catalytic Fragment Of E. Coli Alars
G237a In Complex With Glysa
pdb|3HY1|A Chain A, Crystal Structure Of Catalytic Fragment Of E. Coli Alars
G237a In Complex With Sersa
pdb|3HY1|B Chain B, Crystal Structure Of Catalytic Fragment Of E. Coli Alars
G237a In Complex With Sersa
Length = 441
Score = 48.5 bits (114), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 25/64 (39%), Positives = 37/64 (57%), Gaps = 1/64 (1%)
Query: 3 QTIAKLGESKVLPGDVAWRLYDTYGFPVDLTQLMVEEKGLSVDMEVYEDAKKKAQSEPES 62
+ +AKL L G+ A+RLYDTYGFPVDLT + E+ + VD +E A ++ +
Sbjct: 379 EELAKLS-GDTLDGETAFRLYDTYGFPVDLTADVCRERNIKVDEAGFEAAMEEQRRRARE 437
Query: 63 QAGM 66
+G
Sbjct: 438 ASGF 441
>pdb|1RIQ|A Chain A, The Crystal Structure Of The Catalytic Fragment Of The
Alanyl-Trna Synthetase
Length = 465
Score = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 31/51 (60%), Gaps = 4/51 (7%)
Query: 12 KVLPGDVAWRLYDTYGFPVDLTQLMVEEKGLSVDMEVY----EDAKKKAQS 58
K L G + YDTYGFPVDL + EKGL +D+E + E+ +++A+
Sbjct: 377 KTLSGKEVFTAYDTYGFPVDLIDEIAREKGLGIDLEGFQCELEEQRERARK 427
>pdb|3HTZ|A Chain A, Crystal Structure Of The Catalytic Fragment Of Alanyl-Trna
Synthetase In Complex With L-Serine: Re-Refined
Length = 464
Score = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 31/51 (60%), Gaps = 4/51 (7%)
Query: 12 KVLPGDVAWRLYDTYGFPVDLTQLMVEEKGLSVDMEVY----EDAKKKAQS 58
K L G + YDTYGFPVDL + EKGL +D+E + E+ +++A+
Sbjct: 376 KTLSGKEVFTAYDTYGFPVDLIDEIAREKGLGIDLEGFQCELEEQRERARK 426
>pdb|1YFR|A Chain A, Crystal Structure Of Alanyl-Trna Synthetase In Complex
With Atp And Magnesium
pdb|1YFR|B Chain B, Crystal Structure Of Alanyl-Trna Synthetase In Complex
With Atp And Magnesium
pdb|1YFS|A Chain A, The Crystal Structure Of Alanyl-Trna Synthetase In Complex
With L-Alanine
pdb|1YFS|B Chain B, The Crystal Structure Of Alanyl-Trna Synthetase In Complex
With L-Alanine
pdb|1YFT|A Chain A, The Crystal Structure Of The Catalytic Fragment Of Alanyl-
Trna Synthetase In Complex Wtih Glycine
pdb|1YGB|A Chain A, Crystal Structure Of The Catalytic Fragment Of Alanyl-Trna
Synthetase In Complex With L-Serine
Length = 465
Score = 42.7 bits (99), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 31/51 (60%), Gaps = 4/51 (7%)
Query: 12 KVLPGDVAWRLYDTYGFPVDLTQLMVEEKGLSVDMEVY----EDAKKKAQS 58
K L G + YDTYGFPVDL + EKGL +D+E + E+ +++A+
Sbjct: 377 KTLSGKEVFTAYDTYGFPVDLIDEIAREKGLGIDLEGFQCELEEQRERARK 427
>pdb|2E1B|A Chain A, Crystal Structure Of The Alax-M Trans-Editing Enzyme From
Pyrococcus Horikoshii
Length = 216
Score = 38.5 bits (88), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 32/116 (27%), Positives = 47/116 (40%), Gaps = 28/116 (24%)
Query: 334 EAGILLDKSNFYAEQGGQIYDEGFMIGVNDESQIELWFSSLVNLEGSKYALPIFLQFSXX 393
+ ILLD++ FY GGQ +D G + GV + EG+ + +
Sbjct: 27 DNAILLDQTIFYPTGGGQPHDRGTINGVEV-------LDVYKDEEGNVWHV--------- 70
Query: 394 XXXXXXXXXXXXXXXXXXXRVGDKLKLHIDTARRRPIMSNHTATHILNHALRFVLG 449
+VGD+++L ID R +M HT H+L H L VLG
Sbjct: 71 ------------VKEPEKFKVGDEVELKIDWDYRYKLMRIHTGLHLLEHVLNEVLG 114
Score = 28.5 bits (62), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 23/42 (54%)
Query: 231 SYNKQFVDSVSSGTEAGILLDKSNFYAEQGGQIYDEGFMIGV 272
+Y K+ V + ILLD++ FY GGQ +D G + GV
Sbjct: 13 AYLKEAKGRVLEIRDNAILLDQTIFYPTGGGQPHDRGTINGV 54
>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 = 37.7 bits (86), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 39/143 (27%), Positives = 56/143 (39%), Gaps = 27/143 (18%)
Query: 315 YDEGFMSNKQFVDSVSSGTEAGILLDKSNFYAEQGGQIYDEGFMIGVNDESQIELWFSSL 374
Y++ FM K+F V + ++LD + FY E GGQ YD G +I E ++
Sbjct: 521 YEDPFM--KEFDAKVLRVIKDWVILDATAFYPEGGGQPYDTGVLIVNGREVKV------- 571
Query: 375 VNLEGSKYALPIFLQFSXXXXXXXXXXXXXXXXXXXXXRVGDKLKLHIDTARRRPIMSNH 434
N++ + + G + ID RR M +H
Sbjct: 572 TNVQKVGKVI------------------IHKVEDPGAFKEGMIVHGKIDWKRRIQHMRHH 613
Query: 435 TATHILNHALRFVLGPEADQKGS 457
T TH+L AL VLG Q GS
Sbjct: 614 TGTHVLMGALVRVLGRHVWQAGS 636
Score = 37.4 bits (85), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 30/60 (50%), Gaps = 2/60 (3%)
Query: 213 LGDLSQTKHTPFVKRLRF--SYNKQFVDSVSSGTEAGILLDKSNFYAEQGGQIYDEGFMI 270
L D K P +RL + + K+F V + ++LD + FY E GGQ YD G +I
Sbjct: 504 LVDFELLKDLPDTRRLYYEDPFMKEFDAKVLRVIKDWVILDATAFYPEGGGQPYDTGVLI 563
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 21/38 (55%)
Query: 283 YNKQFVDSVSSGTEAGILLDKSNFYAEQGGQIYDEGFM 320
+ K+F V + ++LD + FY E GGQ YD G +
Sbjct: 525 FMKEFDAKVLRVIKDWVILDATAFYPEGGGQPYDTGVL 562
>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 = 36.6 bits (83), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 34/122 (27%), Positives = 55/122 (45%), Gaps = 28/122 (22%)
Query: 337 ILLDKSNFYAEQGGQIYDEGFMIGVNDESQI-ELWFSSLVNLEGSKYALPIFLQFSXXXX 395
++L++S FY E GGQ D G++I + ++ ++ + V L K A P
Sbjct: 529 VILNRSAFYPESGGQDNDVGYLIANGGKFEVVDVLEADGVVLHVVKGAKP---------- 578
Query: 396 XXXXXXXXXXXXXXXXXRVGDKLKLHIDTARRRPIMSNHTATHILNHALRFVLGPEADQK 455
VG K+K ID+ R +H+ATH+L ++L+ VLG Q
Sbjct: 579 -----------------EVGTKVKGVIDSDVRWRHXRHHSATHVLLYSLQKVLGNHVWQA 621
Query: 456 GS 457
G+
Sbjct: 622 GA 623
Score = 28.9 bits (63), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 17/24 (70%)
Query: 248 ILLDKSNFYAEQGGQIYDEGFMIG 271
++L++S FY E GGQ D G++I
Sbjct: 529 VILNRSAFYPESGGQDNDVGYLIA 552
Score = 28.9 bits (63), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 30/52 (57%), Gaps = 3/52 (5%)
Query: 11 SKVLPGDVAWRLYDTYGFPVDLTQLMVEEKGLSVDM--EVY-EDAKKKAQSE 59
K L D LYD++G PV+L + EKG V+ ++Y E AK+ +++E
Sbjct: 437 KKKLEKDDLIELYDSHGIPVELAVGIAAEKGAEVEXPKDIYAELAKRHSKAE 488
>pdb|3OBW|A Chain A, Crystal Structure Of Two Archaeal Pelotas Reveal
Inter-Domain Structural Plasticity
Length = 364
Score = 35.0 bits (79), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 39/83 (46%), Gaps = 3/83 (3%)
Query: 258 EQGGQIYDEGFMIGVNDEGTVV---GLRYNKQFVDSVSSGTEAGILLDKSNFYAEQGGQI 314
EQG +I E + +N+E ++ L + + V ILL F+ E+ +
Sbjct: 165 EQGIKILSEKSLRPLNEEEGIIEQNALEIATELAEYVKQYDPDAILLAGPGFFKEEVSKK 224
Query: 315 YDEGFMSNKQFVDSVSSGTEAGI 337
+ + K ++DSVSS T AG+
Sbjct: 225 VNAILKNKKIYIDSVSSATRAGL 247
>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 = 34.7 bits (78), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 28/60 (46%), Gaps = 2/60 (3%)
Query: 213 LGDLSQTKHTPFVKRLRF--SYNKQFVDSVSSGTEAGILLDKSNFYAEQGGQIYDEGFMI 270
L D K P +RL + + +F V ++LD + FY E GGQ YD G +I
Sbjct: 504 LVDFELLKDLPDTRRLYYEDPFMXEFDAXVLRVIXDWVILDATAFYPEGGGQPYDTGVLI 563
Score = 32.0 bits (71), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 24/45 (53%), Gaps = 2/45 (4%)
Query: 315 YDEGFMSNKQFVDSVSSGTEAGILLDKSNFYAEQGGQIYDEGFMI 359
Y++ FM +F V ++LD + FY E GGQ YD G +I
Sbjct: 521 YEDPFMX--EFDAXVLRVIXDWVILDATAFYPEGGGQPYDTGVLI 563
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 18/36 (50%), Positives = 20/36 (55%)
Query: 422 IDTARRRPIMSNHTATHILNHALRFVLGPEADQKGS 457
ID RR M +HT TH+L AL VLG Q GS
Sbjct: 601 IDWXRRIQHMRHHTGTHVLMGALVRVLGRHVWQAGS 636
>pdb|2OWL|A Chain A, Crystal Structure Of E. Coli Rdgc
pdb|2OWL|B Chain B, Crystal Structure Of E. Coli Rdgc
Length = 303
Score = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 24/105 (22%), Positives = 48/105 (45%), Gaps = 10/105 (9%)
Query: 257 AEQGGQIYDEGFMIGVNDEGTVVGLRYNKQFVDSVSSGTEAGILLDKSNFYAEQGGQIY- 315
A QG Q+ DE + + ++G V+ + + +++ EAG ++ K +Q Q
Sbjct: 185 AAQGFQLLDEAELKSLLEDGGVIRAKKQDLTSEEITNHIEAGKVVTKLALDWQQRIQFVX 244
Query: 316 -DEGFMSNKQFVDSVSSGTEAGILLDKSNFYAEQGGQIYDEGFMI 359
D+G + +F D + E +D+ +F Q +D F++
Sbjct: 245 CDDGSLKRLKFCDELRDQNED---IDREDF-----AQRFDADFIL 281
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
0.317 0.135 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,793,514
Number of Sequences: 62578
Number of extensions: 565352
Number of successful extensions: 1099
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1068
Number of HSP's gapped (non-prelim): 35
length of query: 474
length of database: 14,973,337
effective HSP length: 102
effective length of query: 372
effective length of database: 8,590,381
effective search space: 3195621732
effective search space used: 3195621732
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: 53 (25.0 bits)