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= 016218
(393 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3THN|A Chain A, Crystal Structure Of Mre11 Core With Manganese
Length = 319
Score = 29.3 bits (64), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 23/46 (50%)
Query: 175 IPLSKIYHNRLLFGIPEDFRDRVAKFPEYFRIVVENDGKRILELVN 220
+PL +Y+ ++ + RD FP Y R+V E D + +L+
Sbjct: 264 LPLKTLYYKKIDTSALKSIRDSCRNFPGYVRVVYEEDSGILPDLMG 309
>pdb|3GWQ|A Chain A, Crystal Structure Of A Putative D-serine Deaminase
(bxe_a4060) From Burkholderia Xenovorans Lb400 At 2.00 A
Resolution
pdb|3GWQ|B Chain B, Crystal Structure Of A Putative D-serine Deaminase
(bxe_a4060) From Burkholderia Xenovorans Lb400 At 2.00 A
Resolution
Length = 426
Score = 29.3 bits (64), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 40/75 (53%), Gaps = 3/75 (4%)
Query: 103 ELGFPRGRKVVK-SIQRHPLIFDVYRHVDNKMWLGFTDFVERLLEEERSIMESMETDRVN 161
ELG P GR V+ + QR+ ++ + R+ D + L + E +L+EE + E +++ V
Sbjct: 172 ELGVPGGRTGVRDAAQRNAVLEAITRYPDT-LKLAGVELYEGVLKEEHEVREFLQS-AVA 229
Query: 162 KVRKLLMISKEKRIP 176
R+L+ + R P
Sbjct: 230 VTRELVEQERFARAP 244
>pdb|3THO|B Chain B, Crystal Structure Of Mre11:rad50 In Its AtpADP BOUND STATE
Length = 379
Score = 29.3 bits (64), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 23/46 (50%)
Query: 175 IPLSKIYHNRLLFGIPEDFRDRVAKFPEYFRIVVENDGKRILELVN 220
+PL +Y+ ++ + RD FP Y R+V E D + +L+
Sbjct: 264 LPLKTLYYKKIDTSALKSIRDSCRNFPGYVRVVYEEDSGILPDLMG 309
>pdb|1S2O|A Chain A, X-Ray Structure Of The Sucrose-Phosphatase (Spp) From
Synechocystis Sp. Pcc6803 At 1.40 A Resolution
pdb|1TJ3|A Chain A, X-Ray Structure Of The Sucrose-Phosphatase (Spp) From
Synechocystis Sp. Pcc6803 In A Closed Conformation
pdb|1TJ4|A Chain A, X-Ray Structure Of The Sucrose-Phosphatase (Spp) From
Synechocystis Sp. Pcc6803 In Complex With Sucrose
pdb|1TJ5|A Chain A, X-Ray Structure Of The Sucrose-Phosphatase (Spp) From
Synechocystis Sp. Pcc6803 In Complex With Sucrose And
Phosphate
pdb|1U2S|A Chain A, X-Ray Structure Of The Sucrose-Phosphatase (Spp) From
Synechocystis Sp. Pcc6803 In Complex With Glucose
pdb|1U2T|A Chain A, X-Ray Structure Of The Sucrose-Phosphatase (Spp) From
Synechocystis Sp. Pcc6803 In Complex With Sucrose6p
pdb|2B1Q|A Chain A, X-ray Structure Of The Sucrose-phosphatase (spp) From
Synechocystis Sp.pcc6803 In Complex With Trehalose
pdb|2B1R|A Chain A, X-Ray Structure Of The Sucrose-Phosphatase (Spp) From
Synechocystis Sp.Pcc6803 In Complex With Cellobiose
pdb|2D2V|A Chain A, X-Ray Structure Of The Sucrose-Phosphatase (Spp) From
Synechocystis Sp.Pcc6803 In Complex With Maltose
Length = 244
Score = 28.9 bits (63), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 19/89 (21%), Positives = 36/89 (40%)
Query: 268 LNTLPLVSPYSDGWKFDMWSLEAEKYRVGVVHEFLSLTLEKRASIHNIVEFKEEFSLTRR 327
+ L L+S + W D +LE + +G L S H+ E +++ L
Sbjct: 1 MRQLLLISDLDNTWVGDQQALEHLQEYLGDRRGNFYLAYATGRSYHSARELQKQVGLMEP 60
Query: 328 TYEMLKKQPRTFHLAGTEMNWAVFLKDAY 356
Y + +H G + +WA +L + +
Sbjct: 61 DYWLTAVGSEIYHPEGLDQHWADYLSEHW 89
>pdb|3R0O|A Chain A, Crystal Structure Of Carnitinyl-Coa Hydratase From
Mycobacterium Avium
pdb|3R0O|B Chain B, Crystal Structure Of Carnitinyl-Coa Hydratase From
Mycobacterium Avium
pdb|3R0O|C Chain C, Crystal Structure Of Carnitinyl-Coa Hydratase From
Mycobacterium Avium
Length = 273
Score = 28.5 bits (62), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 30/126 (23%), Positives = 53/126 (42%), Gaps = 13/126 (10%)
Query: 113 VKSIQRHPLIFDVYRHVDNKMWLGFTDFVERLLEEERSIMESMETDRVNKVRKLLMISKE 172
+K+I R ++ H ++ W GF +V ++ + + ++ + +L + S
Sbjct: 79 LKAISRGENLY----HAEHPEW-GFAGYVHHFID--KPTIAAVNGTALGGGSELALASD- 130
Query: 173 KRIPLSKIYHNRLLFGIPEDFRDRVAKFPEYFRIVVENDGKRILELVNWDPTLAVSELER 232
I FG+PE R +A FRIV + K LELV + S+ R
Sbjct: 131 -----LVIACESASFGLPEVKRGLIAGAGGVFRIVEQLPRKVALELVLTGEPMTASDALR 185
Query: 233 EFIVNE 238
++NE
Sbjct: 186 WGLINE 191
>pdb|2HAE|A Chain A, Crystal Structure Of A Putative Malic Enzyme (Malate
Oxidoreductase)
pdb|2HAE|B Chain B, Crystal Structure Of A Putative Malic Enzyme (Malate
Oxidoreductase)
pdb|2HAE|C Chain C, Crystal Structure Of A Putative Malic Enzyme (Malate
Oxidoreductase)
pdb|2HAE|D Chain D, Crystal Structure Of A Putative Malic Enzyme (Malate
Oxidoreductase)
Length = 386
Score = 28.1 bits (61), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 61/267 (22%), Positives = 100/267 (37%), Gaps = 53/267 (19%)
Query: 152 MESMETDRV--NKVRKLLMISKEKRIPLSKIYHNRLLFGIPEDFRDRVAKFPE------- 202
++++E R K+R L + K R LS +Y + D A+ PE
Sbjct: 3 LDALELHRFLKGKIRTALPVEKVDRETLSLLYTPGV-----ADVARACAEDPEKTYVYTS 57
Query: 203 -YFRIVVENDGKRILELVNWDPTLAVSELEREFIVNEDKVKKAFKFPVKYGKD---LGLD 258
+ + V +DG +L L N P A+ +E KAF F D + L
Sbjct: 58 RWNTVAVVSDGSAVLGLGNIGPYGALPVME----------GKAFLFKAFADIDAFPICLS 107
Query: 259 ESDTRKLNLLNTLPLVSPYSDGWK---------FDMWSLEAEKYRVGVVHEFLSLTLEKR 309
ES+ K+ ++ + + P G F + +E+ + V H+ ++
Sbjct: 108 ESEEEKI--ISIVKSLEPSFGGINLEDIGAPKCFRILQRLSEEMNIPVFHDD-----QQG 160
Query: 310 ASIHNIVEFKEEFSLTRRTYEMLKKQPRTFHLAGTEMNWAVFLKD-------AYGENGIL 362
++ F LT + E +K AG N FL D A GIL
Sbjct: 161 TAVVVSAAFLNALKLTEKKIEEVKVVVNGIGAAG--YNIVKFLLDLGVKNVVAVDRKGIL 218
Query: 363 IQKDPQVVFNEKLCKFAQMQEGEVVSG 389
+ DP+ NE + A++ E +SG
Sbjct: 219 NENDPETCLNEYHLEIARITNPERLSG 245
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
0.321 0.138 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,486,994
Number of Sequences: 62578
Number of extensions: 469592
Number of successful extensions: 1171
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1164
Number of HSP's gapped (non-prelim): 15
length of query: 393
length of database: 14,973,337
effective HSP length: 101
effective length of query: 292
effective length of database: 8,652,959
effective search space: 2526664028
effective search space used: 2526664028
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)