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= 007718
(591 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1M6X|A Chain A, Flpe-Holliday Junction Complex
pdb|1M6X|B Chain B, Flpe-Holliday Junction Complex
Length = 423
Score = 32.0 bits (71), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 21/40 (52%)
Query: 334 VSGSMQGVLLEQTKNALSASLSKLNPQDSFNIIAFNGETH 373
V+ S+Q Q L ASL KL P F II +NG+ H
Sbjct: 73 VNKSLQFKYKTQKATILEASLKKLIPAWEFTIIPYNGQKH 112
>pdb|1M6X|C Chain C, Flpe-Holliday Junction Complex
pdb|1M6X|D Chain D, Flpe-Holliday Junction Complex
Length = 423
Score = 32.0 bits (71), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 21/40 (52%)
Query: 334 VSGSMQGVLLEQTKNALSASLSKLNPQDSFNIIAFNGETH 373
V+ S+Q Q L ASL KL P F II +NG+ H
Sbjct: 73 VNKSLQFKYKTQKATILEASLKKLIPAWEFTIIPYNGQKH 112
>pdb|1P4E|A Chain A, Flpe W330f Mutant-Dna Holliday Junction Complex
pdb|1P4E|B Chain B, Flpe W330f Mutant-Dna Holliday Junction Complex
Length = 429
Score = 32.0 bits (71), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 21/40 (52%)
Query: 334 VSGSMQGVLLEQTKNALSASLSKLNPQDSFNIIAFNGETH 373
V+ S+Q Q L ASL KL P F II +NG+ H
Sbjct: 72 VNKSLQFKYKTQKATILEASLKKLIPAWEFTIIPYNGQKH 111
>pdb|1P4E|C Chain C, Flpe W330f Mutant-Dna Holliday Junction Complex
pdb|1P4E|D Chain D, Flpe W330f Mutant-Dna Holliday Junction Complex
Length = 429
Score = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 21/40 (52%)
Query: 334 VSGSMQGVLLEQTKNALSASLSKLNPQDSFNIIAFNGETH 373
V+ S+Q Q L ASL KL P F II +NG+ H
Sbjct: 72 VNKSLQFKYKTQKATILEASLKKLIPAWEFTIIPYNGQKH 111
>pdb|1ZTV|A Chain A, Crystal Structure Of A Duf72 Family Protein (Ef0366) From
Enterococcus Faecalis V583 At 3.10 A Resolution
pdb|1ZTV|B Chain B, Crystal Structure Of A Duf72 Family Protein (Ef0366) From
Enterococcus Faecalis V583 At 3.10 A Resolution
Length = 289
Score = 31.2 bits (69), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 31/76 (40%), Gaps = 13/76 (17%)
Query: 34 PGMTRQPESYLPEAVMVYAVVGEPQIVDNPDVPSYQPYVHGKCQPPALIPLHMHGVEMEV 93
P +Q ++ E +V EPQI NP VP Y PYV P L+ HG
Sbjct: 159 PNFVKQMLQFMKENQFSLVIVDEPQIPTNP-VPFY-PYVTN----PNLVLFRFHGRNA-- 210
Query: 94 DCCLDTAFVAFNGSWR 109
++A + WR
Sbjct: 211 -----AGWLANDAEWR 221
>pdb|4HQL|A Chain A, Crystal Structure Of Magnesium-Loaded Plasmodium Vivax
Trap Protein
pdb|4HQL|B Chain B, Crystal Structure Of Magnesium-Loaded Plasmodium Vivax
Trap Protein
pdb|4HQN|A Chain A, Crystal Structure Of Manganese-Loaded Plasmodium Vivax
Trap Protein
pdb|4HQN|B Chain B, Crystal Structure Of Manganese-Loaded Plasmodium Vivax
Trap Protein
pdb|4HQO|A Chain A, Crystal Structure Of Plasmodium Vivax Trap Protein
pdb|4HQO|B Chain B, Crystal Structure Of Plasmodium Vivax Trap Protein
Length = 266
Score = 30.8 bits (68), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 42/163 (25%), Positives = 73/163 (44%), Gaps = 20/163 (12%)
Query: 327 DVVFLVDVSGSMQGVLLEQTK-----NALSASLSKLNPQDSFNII-----AFNGETHLFS 376
D+ LVD SGS+ G TK N L SLS +D+ N+ ++ E
Sbjct: 20 DLYLLVDGSGSI-GYPNWITKVIPMLNGLINSLSL--SRDTINLYMNLFGSYTTELIRLG 76
Query: 377 SSMKLASQGTIINATQWLSSLVAGGGTNILLPLKQAIKLLSDT---SESIPLIFLITDGT 433
S + + + T+ + G T++ L + K L+D ++I L+ L+TDG
Sbjct: 77 SGQSIDKRQALSKVTELRKTYTPYGTTSMTAALDEVQKHLNDRVNREKAIQLVILMTDG- 135
Query: 434 VGDERGICNEIKSYLTNTRSISPRICTFGVGLYCNHYFLQILA 476
V + + E+ + L + + R+ G+G NH F +++A
Sbjct: 136 VPNSKYRALEVANKL---KQRNVRLAVIGIGQGINHQFNRLIA 175
>pdb|2XBG|A Chain A, Crystal Structure Of Ycf48 From Thermosynechococcus
Elongatus
Length = 327
Score = 30.4 bits (67), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 28/121 (23%), Positives = 52/121 (42%), Gaps = 33/121 (27%)
Query: 129 ERGSLLGV-----EVEIDGRSYQSKLISLDDAEYKENVGKSKGDGRYLKGQIYTLRIPQV 183
G L+GV E G++++ + + LD ++Y+ N +G+ ++ G+ + +
Sbjct: 47 HHGWLVGVNATLMETRDGGQTWEPRTLVLDHSDYRFNSVSFQGNEGWIVGEP-PIMLHTT 105
Query: 184 DGGSTLSIKVNWSQKLTYEEGQFCLSVPFTFPAYVIPLGRKIPKSEKIILNVNSGVSEQI 243
DGG + WSQ IPL K+P S ++I + +G +E I
Sbjct: 106 DGGQS------WSQ---------------------IPLDPKLPGSPRLIKALGNGSAEMI 138
Query: 244 V 244
Sbjct: 139 T 139
>pdb|3K6S|A Chain A, Structure Of Integrin Alphaxbeta2 Ectodomain
pdb|3K6S|C Chain C, Structure Of Integrin Alphaxbeta2 Ectodomain
pdb|3K6S|E Chain E, Structure Of Integrin Alphaxbeta2 Ectodomain
pdb|3K6S|G Chain G, Structure Of Integrin Alphaxbeta2 Ectodomain
pdb|3K71|A Chain A, Structure Of Integrin Alphax Beta2 Ectodomain
pdb|3K71|C Chain C, Structure Of Integrin Alphax Beta2 Ectodomain
pdb|3K71|E Chain E, Structure Of Integrin Alphax Beta2 Ectodomain
pdb|3K71|G Chain G, Structure Of Integrin Alphax Beta2 Ectodomain
pdb|3K72|A Chain A, Structure Of Integrin Alphax Beta2
pdb|3K72|C Chain C, Structure Of Integrin Alphax Beta2
Length = 1095
Score = 29.3 bits (64), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 29/113 (25%), Positives = 51/113 (45%), Gaps = 15/113 (13%)
Query: 277 DFKFSYTVASTDLFGGVLLQSPSLHDFDQRQIF----CLYLFPGK-SQSRKVFRK----- 326
+ ++AST +L P++H R ++ C L P + +Q V R+
Sbjct: 70 NMSLGLSLASTTSPSQLLACGPTVHHECGRNMYLTGLCFLLGPTQLTQRLPVSRQECPRQ 129
Query: 327 --DVVFLVDVSGSMQGVLLEQTKNALSASLSKLN-PQDSFNIIAFNG--ETHL 374
D+VFL+D SGS+ N + A +S+ P F+++ F+ +TH
Sbjct: 130 EQDIVFLIDGSGSISSRNFATMMNFVRAVISQFQRPSTQFSLMQFSNKFQTHF 182
>pdb|2GMW|A Chain A, Crystal Structure Of D,D-Heptose 1.7-Bisphosphate
Phosphatase From E. Coli.
pdb|2GMW|B Chain B, Crystal Structure Of D,D-Heptose 1.7-Bisphosphate
Phosphatase From E. Coli.
pdb|3ESQ|A Chain A, Crystal Structure Of Calcium-Bound D,D-Heptose
1.7-Bisphosphate Phosphatase From E. Coli
pdb|3ESR|A Chain A, Crystal Structure Of D,D-Heptose1.7-Bisphosphate
Phosphatase From E. Coli In Complex With Calcium And
Phosphate
pdb|3L1U|A Chain A, Crystal Structure Of Calcium-Bound Gmhb From E. Coli.
pdb|3L1U|B Chain B, Crystal Structure Of Calcium-Bound Gmhb From E. Coli.
pdb|3L1V|A Chain A, Crystal Structure Of Gmhb From E. Coli In Complex With
Calcium And Phosphate.
pdb|3L1V|B Chain B, Crystal Structure Of Gmhb From E. Coli In Complex With
Calcium And Phosphate
Length = 211
Score = 29.3 bits (64), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 20/31 (64%)
Query: 417 SDTSESIPLIFLITDGTVGDERGICNEIKSY 447
S ++S+P IFL DGT+ + G +EI ++
Sbjct: 19 SHMAKSVPAIFLDRDGTINVDHGYVHEIDNF 49
>pdb|1E4F|T Chain T, Ftsa (Apo Form) From Thermotoga Maritima
pdb|4A2A|A Chain A, Thermotoga Maritima Ftsa:ftsz(336-351)
pdb|4A2A|B Chain B, Thermotoga Maritima Ftsa:ftsz(336-351)
pdb|4A2B|A Chain A, Thermotoga Maritima Ftsa With Atp Gamma S
Length = 419
Score = 29.3 bits (64), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 38/88 (43%), Gaps = 11/88 (12%)
Query: 325 RKDVVFLVDVSGSMQGVLLEQTKNALSASLSKLNPQDSFNIIAFNGET--HLFSSSMKLA 382
R+D V D + + L+ S +L KL NG+T H+FS L
Sbjct: 90 REDTVIERDFGEEKRSITLDILSEMQSEALEKLKE---------NGKTPLHIFSKRYLLD 140
Query: 383 SQGTIINATQWLSSLVAGGGTNILLPLK 410
+ + N +S +A T+I++PLK
Sbjct: 141 DERIVFNPLDMKASKIAIEYTSIVVPLK 168
>pdb|1E4G|T Chain T, Ftsa (Atp-Bound Form) From Thermotoga Maritima
Length = 419
Score = 29.3 bits (64), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 38/88 (43%), Gaps = 11/88 (12%)
Query: 325 RKDVVFLVDVSGSMQGVLLEQTKNALSASLSKLNPQDSFNIIAFNGET--HLFSSSMKLA 382
R+D V D + + L+ S +L KL NG+T H+FS L
Sbjct: 90 REDTVIERDFGEEKRSITLDILSEXQSEALEKLKE---------NGKTPLHIFSKRYLLD 140
Query: 383 SQGTIINATQWLSSLVAGGGTNILLPLK 410
+ + N +S +A T+I++PLK
Sbjct: 141 DERIVFNPLDXKASKIAIEYTSIVVPLK 168
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 0.137 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,038,909
Number of Sequences: 62578
Number of extensions: 778601
Number of successful extensions: 1773
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 1768
Number of HSP's gapped (non-prelim): 25
length of query: 591
length of database: 14,973,337
effective HSP length: 104
effective length of query: 487
effective length of database: 8,465,225
effective search space: 4122564575
effective search space used: 4122564575
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: 54 (25.4 bits)