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= 042584
(390 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1OXW|A Chain A, The Crystal Structure Of Semet Patatin
pdb|1OXW|B Chain B, The Crystal Structure Of Semet Patatin
pdb|1OXW|C Chain C, The Crystal Structure Of Semet Patatin
Length = 373
Score = 316 bits (809), Expect = 1e-86, Method: Compositional matrix adjust.
Identities = 175/376 (46%), Positives = 231/376 (61%), Gaps = 23/376 (6%)
Query: 18 ITILSXXXXXXXXXXXXXXLAYLESQLQELDGQ-DARLADYFDVIAGTSTGGLITAMLTA 76
+T+LS L +LE QLQE D DARLADYFDVI GTSTGGL+TA ++
Sbjct: 16 VTVLSIDGGGIRGIIPATILEFLEGQLQEXDNNADARLADYFDVIGGTSTGGLLTAXIST 75
Query: 77 PKEQNRPMSAAKDIVPFYIRHGPKIFPQLRALMGSKYDGKYLHKVIKEDLKDTKLHQTLT 136
P E NRP +AAK+IVPFY HGP+IF ++G KYDGKYL +V++E L +T++HQ LT
Sbjct: 76 PNENNRPFAAAKEIVPFYFEHGPQIFNPSGQILGPKYDGKYLXQVLQEKLGETRVHQALT 135
Query: 137 NVVIPTFDIKKLQPTIFSSFQVAASPDLDAQLADIAIGTSAAPTYFPAYYFENPDEHGTL 196
VVI +FDIK +P IF+ +A SP+LDA+ DI+ T+AAPTYFP +YF +G
Sbjct: 136 EVVISSFDIKTNKPVIFTKSNLANSPELDAKXYDISYSTAAAPTYFPPHYFVTNTSNGDE 195
Query: 197 KEFNLIDGGVA-ANNPTLVAICEVTKHILKNPDFCQINPLDYTRFLVISLGTGSKRSEHK 255
EFNL+DG VA +P L++I T+ K+P F I L+Y + L++SLGTG+ K
Sbjct: 196 YEFNLVDGAVATVADPALLSISVATRLAQKDPAFASIRSLNYKKXLLLSLGTGTTSEFDK 255
Query: 256 -YNAKMASRWGVINW-LYDNGDTPLLDCYGQAIGDMVDYHISVVFQALQSEDNYLRIDDD 313
Y AK A+ W ++W L T Y DY++S FQAL S++NYLR+ ++
Sbjct: 256 TYTAKEAATWTAVHWXLVIQKXTDAASSY------XTDYYLSTAFQALDSKNNYLRVQEN 309
Query: 314 TLQGDLSSIDLTTPENSENLVRAGEALLKKPVSRINLDTGLYEPIENGSAGTNEEALKRF 373
L G + D + N E LV+ GE LLKKPVS N + T EEALKRF
Sbjct: 310 ALTGTTTEXDDASEANXELLVQVGENLLKKPVSEDNPE-------------TYEEALKRF 356
Query: 374 AKMLSDERKLRESKSS 389
AK+LSD +KLR +K+S
Sbjct: 357 AKLLSDRKKLRANKAS 372
>pdb|2CIR|A Chain A, Structure-Based Functional Annotation: Yeast Ymr099c Codes
For A D-Hexose-6-Phosphate Mutarotase. Complex With
Glucose-6-Phosphate
pdb|2CIS|A Chain A, Structure-Based Functional Annotation: Yeast Ymr099c Codes
For A D-Hexose-6-Phosphate Mutarotase. Complex With
Tagatose-6-Phosphate
Length = 297
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 25/100 (25%), Positives = 41/100 (41%), Gaps = 9/100 (9%)
Query: 179 PTYFPAYYFENPDEH-GTLKEFNLIDG------GVAANNPTLVAICEVTKHILKNPDFCQ 231
P FP + + DEH L + L G NP V K + NP+ +
Sbjct: 61 PLVFPVFGKNSTDEHLSKLPQHGLARNSTWEFLGQTKENPPTVQFG--LKPEIANPELTK 118
Query: 232 INPLDYTRFLVISLGTGSKRSEHKYNAKMASRWGVINWLY 271
+ P+DY L + LG+ ++ + +S+ NWL+
Sbjct: 119 LWPMDYLLILTVELGSDYLKTAIEVENTSSSKELKFNWLF 158
>pdb|2CIQ|A Chain A, Structure-Based Functional Annotation: Yeast Ymr099c Codes
For A D-Hexose-6-Phosphate Mutarotase
Length = 297
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 25/100 (25%), Positives = 41/100 (41%), Gaps = 9/100 (9%)
Query: 179 PTYFPAYYFENPDEH-GTLKEFNLIDG------GVAANNPTLVAICEVTKHILKNPDFCQ 231
P FP + + DEH L + L G NP V K + NP+ +
Sbjct: 61 PLVFPVFGKNSTDEHLSKLPQHGLARNSTWEFLGQTKENPPTVQFG--LKPEIANPELTK 118
Query: 232 INPLDYTRFLVISLGTGSKRSEHKYNAKMASRWGVINWLY 271
+ P+DY L + LG+ ++ + +S+ NWL+
Sbjct: 119 LWPMDYLLILTVELGSDYLKTAIEVENTSSSKELKFNWLF 158
>pdb|1T90|A Chain A, Crystal Structure Of Methylmalonate Semialdehyde
Dehydrogenase From Bacillus Subtilis
pdb|1T90|B Chain B, Crystal Structure Of Methylmalonate Semialdehyde
Dehydrogenase From Bacillus Subtilis
pdb|1T90|C Chain C, Crystal Structure Of Methylmalonate Semialdehyde
Dehydrogenase From Bacillus Subtilis
pdb|1T90|D Chain D, Crystal Structure Of Methylmalonate Semialdehyde
Dehydrogenase From Bacillus Subtilis
Length = 486
Score = 28.1 bits (61), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 38/85 (44%), Gaps = 23/85 (27%)
Query: 77 PKEQNRPMSAAKDIVPFYIRHGPKIFPQLRAL--MGSKYDGKYLHKVIKEDLK------- 127
PK + A D+V + H P+++A+ +GSK G+Y++K E+LK
Sbjct: 197 PKGVFNVVYGAHDVVNGILEH-----PEIKAISFVGSKPVGEYVYKKGSENLKRVQSLTG 251
Query: 128 ---------DTKLHQTLTNVVIPTF 143
D L T+TN+V F
Sbjct: 252 AKNHTIVLNDANLEDTVTNIVGAAF 276
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 0.389
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,754,635
Number of Sequences: 62578
Number of extensions: 501987
Number of successful extensions: 1141
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1132
Number of HSP's gapped (non-prelim): 9
length of query: 390
length of database: 14,973,337
effective HSP length: 101
effective length of query: 289
effective length of database: 8,652,959
effective search space: 2500705151
effective search space used: 2500705151
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: 52 (24.6 bits)