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= 042756
(425 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3NEL|A Chain A, Aspartyl-Trna Synthetase Complexed With Aspartic Acid
pdb|3NEL|B Chain B, Aspartyl-Trna Synthetase Complexed With Aspartic Acid
pdb|3NEM|A Chain A, Aspartyl-Trna Synthetase Complexed With Aspartyl Adenylate
pdb|3NEM|B Chain B, Aspartyl-Trna Synthetase Complexed With Aspartyl Adenylate
pdb|3NEN|A Chain A, Unliganded Aspartyl-Trna Synthetase From Thermococcus
Kodakarensis
pdb|3NEN|B Chain B, Unliganded Aspartyl-Trna Synthetase From Thermococcus
Kodakarensis
Length = 438
Score = 31.6 bits (70), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 28/50 (56%), Gaps = 7/50 (14%)
Query: 206 HEAENLIEEMRVKGLEPSGFEY--KCIIYG---YGRLGLLEDMERIVNQM 250
H + L+E+++ KGL P FE+ K YG +G GL ER++ QM
Sbjct: 370 HRHDILVEQIKEKGLNPESFEFYLKAFRYGMPPHGGFGL--GAERLIKQM 417
>pdb|1B8A|A Chain A, Aspartyl-trna Synthetase
pdb|1B8A|B Chain B, Aspartyl-trna Synthetase
Length = 438
Score = 31.6 bits (70), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 28/50 (56%), Gaps = 7/50 (14%)
Query: 206 HEAENLIEEMRVKGLEPSGFEY--KCIIYG---YGRLGLLEDMERIVNQM 250
H + L+E+++ KGL P FE+ K YG +G GL ER++ QM
Sbjct: 370 HRHDILVEQIKEKGLNPESFEFYLKAFRYGMPPHGGFGL--GAERLIKQM 417
>pdb|2G9B|A Chain A, Nmr Solution Structure Of Ca2+-Loaded Calbindin D28k
pdb|2F33|A Chain A, Nmr Solution Structure Of Ca2+-Loaded Calbindin D28k
Length = 263
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 46/90 (51%), Gaps = 10/90 (11%)
Query: 112 KLVAEIIAFLDKQGQREEAETLILETLSKLGSRERELVLFYCNLIDSFCKHDSKRGFDDT 171
+L E+ F+D+ GQR++ + I+E L + E L+LF C + S C+ F T
Sbjct: 55 ELSPEMKTFVDQYGQRDDGKIGIVELAHVLPTEENFLLLFRCQQLKS-CEE-----FMKT 108
Query: 172 YARLNQLVNSSSSVYVKRQALKSMISGLCE 201
+ + ++ S +++ + LK+ + L E
Sbjct: 109 WRK----YDTDHSGFIETEELKNFLKDLLE 134
>pdb|2D9I|A Chain A, Solution Structure Of The Smr Domain Of Nedd4-Binding
Protein 2
Length = 96
Score = 30.0 bits (66), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 37/73 (50%), Gaps = 7/73 (9%)
Query: 353 WDSGETKLDLHGMHLGSAYFIILQWMDEMRNRF--NNEKHVIPAEITVVCGSGKHSTVRG 410
SG+ LDLHG+H+ A +++ +++ F N K ++V+ G G HS G
Sbjct: 4 GSSGQNVLDLHGLHVDEALEHLMRVLEKKTEEFKQNGGK----PYLSVITGRGNHSQ-GG 58
Query: 411 ESSVKAMVKKMMV 423
+ +K V K ++
Sbjct: 59 VARIKPAVIKYLI 71
>pdb|3FRN|A Chain A, Crystal Structure Of Flagellar Protein Flga From
Thermotoga Maritima Msb8
Length = 278
Score = 28.5 bits (62), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 29/127 (22%), Positives = 51/127 (40%), Gaps = 16/127 (12%)
Query: 72 IALNALSHLLSPDTTHPRLSSLAF--PLYMRITEESWFQWNPKLVAEIIAFLDKQGQREE 129
I L L +L++ D + F P +RIT E + + EI K+ + ++
Sbjct: 36 ILLPGLEYLVTRDLLRTKFPEYDFTGPENVRITVEGYSSLKNAVFEEI----GKKAEAKD 91
Query: 130 AETLILETLSKLGSRERELVLFYC----NLIDSFCKHDSKRGFDDTYARLNQLVNSSSSV 185
E +++T L + + NL F + F DTY LN L+ +V
Sbjct: 92 FEAFVVKTFGTLPEKFEPQTIRVTKISKNLFSVFLR------FPDTYVTLNMLLRKERNV 145
Query: 186 YVKRQAL 192
V ++ +
Sbjct: 146 VVLKRNI 152
>pdb|1J0E|A Chain A, Acc Deaminase Mutant Reacton Intermediate
pdb|1J0E|B Chain B, Acc Deaminase Mutant Reacton Intermediate
pdb|1J0E|C Chain C, Acc Deaminase Mutant Reacton Intermediate
pdb|1J0E|D Chain D, Acc Deaminase Mutant Reacton Intermediate
Length = 341
Score = 28.1 bits (61), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 16/68 (23%), Positives = 29/68 (42%)
Query: 201 EMGQPHEAENLIEEMRVKGLEPSGFEYKCIIYGYGRLGLLEDMERIVNQMESDGTRVDTV 260
++G N ++E+ G +P C + YG LG + + ++NQ G + D +
Sbjct: 137 DIGMRKSFANALQELEDAGHKPYPIPAGCSEHKYGGLGFVGFADEVINQEVELGIKFDKI 196
Query: 261 CSNMVLSS 268
V S
Sbjct: 197 VVCCVTGS 204
>pdb|1N9W|A Chain A, Crystal Structure Of The Non-Discriminating And Archaeal-
Type Aspartyl-Trna Synthetase From Thermus Thermophilus
pdb|1N9W|B Chain B, Crystal Structure Of The Non-Discriminating And Archaeal-
Type Aspartyl-Trna Synthetase From Thermus Thermophilus
pdb|3KFU|A Chain A, Crystal Structure Of The Transamidosome
pdb|3KFU|B Chain B, Crystal Structure Of The Transamidosome
pdb|3KFU|C Chain C, Crystal Structure Of The Transamidosome
pdb|3KFU|D Chain D, Crystal Structure Of The Transamidosome
Length = 422
Score = 28.1 bits (61), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 10/30 (33%), Positives = 17/30 (56%)
Query: 206 HEAENLIEEMRVKGLEPSGFEYKCIIYGYG 235
H E L+E ++ KG++P F ++ YG
Sbjct: 354 HRYEELLESLKAKGMDPEAFHGYLEVFKYG 383
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
0.319 0.132 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,480,773
Number of Sequences: 62578
Number of extensions: 380306
Number of successful extensions: 1036
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1028
Number of HSP's gapped (non-prelim): 12
length of query: 425
length of database: 14,973,337
effective HSP length: 102
effective length of query: 323
effective length of database: 8,590,381
effective search space: 2774693063
effective search space used: 2774693063
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (25.0 bits)