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= 001485
(1070 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1J5W|A Chain A, Crystal Structure Of Glycyl-Trna Synthetase Alpha Chain
(Tm0216) From Thermotoga Maritima At 1.95 A Resolution
pdb|1J5W|B Chain B, Crystal Structure Of Glycyl-Trna Synthetase Alpha Chain
(Tm0216) From Thermotoga Maritima At 1.95 A Resolution
Length = 298
Score = 333 bits (855), Expect = 3e-91, Method: Compositional matrix adjust.
Identities = 152/282 (53%), Positives = 204/282 (72%)
Query: 77 QQAIQRLQEYWASVGCSVMQCSNTEVGAGTMNPLTFLRVLGPEPWNVAYVEPSIRPDDSR 136
Q I +L ++WAS GC + Q + EVGAGT +P TF L PW VAYV+PS RP D R
Sbjct: 16 QDVIXKLNDFWASKGCLLEQPYDXEVGAGTFHPATFFGSLRKGPWKVAYVQPSRRPTDGR 75
Query: 137 YGENPNRLQRHTQFQVILKPDPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAW 196
YGENPNRLQR+ Q+QVI+KP P NSQ+L++ SL LGI++ EHDIRFVEDNWESP LGAW
Sbjct: 76 YGENPNRLQRYFQYQVIIKPSPENSQELYLESLEYLGINLKEHDIRFVEDNWESPTLGAW 135
Query: 197 GLGWEIWMDGMEITQFTYFQQAGSLQLSPVSVEITYGLERILMLLQGVDHFKKIQYADGI 256
G+GWE+W+DG EITQFTYFQQ G + L + +EITYGLERI LQGVD+ ++Q+ + +
Sbjct: 136 GVGWEVWLDGXEITQFTYFQQIGGISLKDIPLEITYGLERIAXYLQGVDNVYEVQWNENV 195
Query: 257 TYGELFLENEKEMSAYYLEHANVHHLQKQFDFFEEESRSLLASGLAIPAYDQLLKTSHAF 316
YG++FLENE+E S + E ANV L + FD +E+E L+ L +PAYD +LK SH F
Sbjct: 196 KYGDVFLENEREFSVFNFEEANVGLLFRHFDEYEKEFYRLVEKNLYLPAYDYILKCSHTF 255
Query: 317 NILDSRGFVGVTERARYFGRMRSLARQCAQLWLKTRKSLGHP 358
N+LD+RG + V++R Y R+++ AR+ A+++L+ + + P
Sbjct: 256 NLLDARGAISVSQRQTYVKRIQAXARKAARVFLEVQANENSP 297
>pdb|3RF1|A Chain A, The Crystal Structure Of Glycyl-Trna Synthetase Subunit
Alpha From Campylobacter Jejuni Subsp. Jejuni Nctc 11168
pdb|3RF1|B Chain B, The Crystal Structure Of Glycyl-Trna Synthetase Subunit
Alpha From Campylobacter Jejuni Subsp. Jejuni Nctc 11168
pdb|3RGL|A Chain A, The Crystal Structure Of Glycyl-Trna Synthetase Subunit
Alpha From Campylobacter Jejuni Subsp. Jejuni Nctc In
Complex With Atp And Glycine
pdb|3RGL|B Chain B, The Crystal Structure Of Glycyl-Trna Synthetase Subunit
Alpha From Campylobacter Jejuni Subsp. Jejuni Nctc In
Complex With Atp And Glycine
pdb|3UFG|A Chain A, The Crystal Structure Of Glycyl-Trna Synthetase Subunit
Alpha From Campylobacter Jejuni Subsp. Jejuni Nctc In
Complex With Atp
pdb|3UFG|B Chain B, The Crystal Structure Of Glycyl-Trna Synthetase Subunit
Alpha From Campylobacter Jejuni Subsp. Jejuni Nctc In
Complex With Atp
Length = 311
Score = 305 bits (782), Expect = 7e-83, Method: Compositional matrix adjust.
Identities = 142/286 (49%), Positives = 192/286 (67%), Gaps = 4/286 (1%)
Query: 70 KASVPTFQQAIQRLQEYWASVGCSVMQCSNTEVGAGTMNPLTFLRVLGPEPWNVAYVEPS 129
+++ TF Q I LQ YW GC++ Q + GAGT +P TFLR LG +PW AYV PS
Sbjct: 21 QSNAXTFSQXILNLQNYWQEQGCAIXQPYDXPAGAGTFHPATFLRSLGKKPWAAAYVAPS 80
Query: 130 IRPDDSRYGENPNRLQRHTQFQVILKPDPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWE 189
RP D RYGENPNRL + QFQV++KP P N Q+L+++SL LG D+ HDIRFVEDNWE
Sbjct: 81 RRPTDGRYGENPNRLGAYYQFQVLIKPSPDNIQELYLKSLENLGFDLKSHDIRFVEDNWE 140
Query: 190 SPVLGAWGLGWEIWMDGMEITQFTYFQQAGSLQLSPVSVEITYGLERILMLLQGVDHFKK 249
SP LGAWGLGWE+W+DG E+TQFTYFQQ G + + VS EITYGLERI LQ VD+
Sbjct: 141 SPSLGAWGLGWEVWLDGXEVTQFTYFQQVGGIAVDLVSAEITYGLERIAXYLQNVDNVYD 200
Query: 250 IQYA----DGITYGELFLENEKEMSAYYLEHANVHHLQKQFDFFEEESRSLLASGLAIPA 305
I ++ + I Y ++ ++E E S Y E ++V L +QF+ +E +++L GLA+PA
Sbjct: 201 IVWSEFNGEKIKYADVHKQSEYEFSKYNFEVSDVKILNEQFENSYKECKNILEQGLALPA 260
Query: 306 YDQLLKTSHAFNILDSRGFVGVTERARYFGRMRSLARQCAQLWLKT 351
YD +H FN+LD+RG + V +R Y ++R L++ CA+++ K
Sbjct: 261 YDYCXLAAHTFNLLDARGAISVAQRQDYXLKIRELSKNCAEIYKKN 306
>pdb|1FDJ|A Chain A, Fructose 1,6-Bisphosphate Aldolase From Rabbit Liver
pdb|1FDJ|B Chain B, Fructose 1,6-Bisphosphate Aldolase From Rabbit Liver
pdb|1FDJ|C Chain C, Fructose 1,6-Bisphosphate Aldolase From Rabbit Liver
pdb|1FDJ|D Chain D, Fructose 1,6-Bisphosphate Aldolase From Rabbit Liver
Length = 363
Score = 30.8 bits (68), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 35/71 (49%), Gaps = 18/71 (25%)
Query: 561 GVLSGNLSYGLRNTPLATVKVQNAESYAGVMRNAGVKIKIEDRRK---TIFDRSNALAKS 617
G+L+ + S G L +KV+N+E E+RR+ +F N++ +S
Sbjct: 28 GILAADESVGTMGNRLQRIKVENSE---------------ENRRQFREILFTVDNSINQS 72
Query: 618 VNGRIIFEESL 628
+ G I+F E+L
Sbjct: 73 IGGVILFHETL 83
>pdb|3SP1|A Chain A, Crystal Structure Of Cysteinyl-Trna Synthetase (Cyss) From
Borrelia Burgdorferi
pdb|3SP1|B Chain B, Crystal Structure Of Cysteinyl-Trna Synthetase (Cyss) From
Borrelia Burgdorferi
Length = 501
Score = 30.4 bits (67), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 27/123 (21%), Positives = 46/123 (37%), Gaps = 8/123 (6%)
Query: 163 DLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGWEIWMDGMEITQFTYFQQAGSLQ 222
D F R+ + + T + E W+SP WG G+ W YF+ A +
Sbjct: 202 DKFKRNKTDFVLWFTNSKFKDQEMKWDSP----WGFGYPSWHLECAAMNLEYFKDALDIH 257
Query: 223 LSPVSVEITYGLERILMLLQGVDHFKKIQYADGITYGELFLENEKEMSAYYLEHANVHHL 282
L V + + I + + F ++ D +GE + + +MS V L
Sbjct: 258 LGGVDHIGVHHINEIAI----AECFLNKKWCDVFVHGEFLIMDYNKMSKSRGNFITVKDL 313
Query: 283 QKQ 285
+ Q
Sbjct: 314 EDQ 316
>pdb|3QOK|A Chain A, Crystal Structure Of Putative Chitinase Ii From Klebsiella
Pneumoniae
Length = 420
Score = 30.0 bits (66), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 24/38 (63%), Gaps = 3/38 (7%)
Query: 161 SQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGL 198
S+ +FIRS + + ++ + ++ +WE PV GAWGL
Sbjct: 131 SRAVFIRSAQKI---IQQYGLDGIDLDWEFPVNGAWGL 165
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
0.320 0.136 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 29,566,462
Number of Sequences: 62578
Number of extensions: 1201810
Number of successful extensions: 2987
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 2984
Number of HSP's gapped (non-prelim): 7
length of query: 1070
length of database: 14,973,337
effective HSP length: 109
effective length of query: 961
effective length of database: 8,152,335
effective search space: 7834393935
effective search space used: 7834393935
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: 57 (26.6 bits)