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= 023653
(279 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2XB3|A Chain A, The Structure Of Cyanobacterial Psbp
Length = 165
Score = 83.6 bits (205), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 54/178 (30%), Positives = 90/178 (50%), Gaps = 21/178 (11%)
Query: 98 GFREYIDTFDGYSFKYPQNWIQVRGAG-ADIFYRDPYVLDENVSVELXXXXXXRYKSVED 156
G + Y+D++DGY F YP+ W+QV+ D+ + D ENVSV + KS+E+
Sbjct: 7 GLQAYVDSYDGYEFLYPRGWVQVQVEDPVDVVFHDIIETTENVSVVVNTVAST--KSLEE 64
Query: 157 LGPPKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEVNIKSFANNN 216
LG P+E G ++LR + S R S +++ +S+ ADD + YY++E +
Sbjct: 65 LGSPEEVGDRLLRNIIAPSES-----GRSSALIAATSQKADD-KTYYILEYAV------- 111
Query: 217 ELAVMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPENVFVEEENDLRQVIDSFRV 274
+P D N R LS + V ++Y L + PE + + E+ + ++ SF V
Sbjct: 112 ---TLPGDG--NTAQQRHNLSSIAVSRGKVYTLSVSAPEERWPKVEDQFKTIVSSFTV 164
>pdb|2LNJ|A Chain A, Solution Structure Of Cyanobacterial Psbp (Cyanop) From
Synechocystis Sp. Pcc 6803
Length = 170
Score = 50.8 bits (120), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 35/112 (31%), Positives = 57/112 (50%), Gaps = 12/112 (10%)
Query: 99 FREYIDTFDGYSFKYPQNWI--QVRGA--GADIFYRDPYVLDENVSVELXXXXXXRYKSV 154
+ Y DT DGY F YP WI V+GA G D+ +RD DEN+SV + K++
Sbjct: 14 LQRYSDTKDGYEFLYPNGWIGVDVKGASPGVDVVFRDLIERDENLSVIISEIPSD--KTL 71
Query: 155 EDLGPPKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVE 206
DLG + G + ++ R++ +++ +R +DG++YY +E
Sbjct: 72 TDLGTATDVGYRFMKTVNDASQGD-----RQAELINAEAR-DEDGQVYYTLE 117
>pdb|3KUX|A Chain A, Structure Of The Ypo2259 Putative Oxidoreductase From
Yersinia Pestis
Length = 352
Score = 33.1 bits (74), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 22/57 (38%), Positives = 32/57 (56%), Gaps = 2/57 (3%)
Query: 83 SDFGFRNTALAQQSVGFREYIDT-FDGYSFKYPQNWIQVRGAGADIFYR-DPYVLDE 137
SDF T LA+ S+G Y ++ FD Y + Q W + GAG I+Y P++LD+
Sbjct: 131 SDFLTLKTLLAEGSLGNVVYFESHFDRYRPEIRQRWREQAGAGGGIWYDLGPHLLDQ 187
>pdb|3CSK|A Chain A, Structure Of Dpp Iii From Saccharomyces Cerevisiae
Length = 711
Score = 32.0 bits (71), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 34/70 (48%), Gaps = 3/70 (4%)
Query: 2 ARMVMMQ--HQTHPCFSILTSTLSGFNGASLHSQVRQQQQTPLPREALHVTASNEKKNPV 59
+R+VM Q H++ P F ++ + S NG + Q+QQT L E + SN
Sbjct: 44 SRVVMRQVSHESEPIFDLILAIHSKLNGKYPEDDITQKQQTGLYLEYVSQFLSNLGNFKS 103
Query: 60 MAATQFAVPR 69
T+F +PR
Sbjct: 104 FGDTKF-IPR 112
>pdb|3Q8M|A Chain A, Crystal Structure Of Human Flap Endonuclease Fen1 (D181a)
In Complex With Substrate 5'-Flap Dna And K+
pdb|3Q8M|B Chain B, Crystal Structure Of Human Flap Endonuclease Fen1 (D181a)
In Complex With Substrate 5'-Flap Dna And K+
Length = 341
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 31/111 (27%), Positives = 44/111 (39%), Gaps = 22/111 (19%)
Query: 48 HVTASNEKKNPVMAATQFAVPR------------RNAMALILSSYIFSDFGF---RNTAL 92
H+TAS KK P+ +F + R + L+ S Y S G R L
Sbjct: 192 HLTASEAKKLPI---QEFHLSRILQELGLNQEQFVDLCILLGSDYCESIRGIGPKRAVDL 248
Query: 93 AQQSVGFREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVSVEL 143
Q+ E + D + P+NW+ A + +P VLD SVEL
Sbjct: 249 IQKHKSIEEIVRRLDPNKYPVPENWLHKE---AHQLFLEPEVLDPE-SVEL 295
>pdb|3Q8K|A Chain A, Crystal Structure Of Human Flap Endonuclease Fen1 (Wt) In
Complex With Product 5'-Flap Dna, Sm3+, And K+
pdb|3Q8L|A Chain A, Crystal Structure Of Human Flap Endonuclease Fen1 (Wt) In
Complex With Substrate 5'-Flap Dna, Sm3+, And K+
Length = 341
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 31/111 (27%), Positives = 44/111 (39%), Gaps = 22/111 (19%)
Query: 48 HVTASNEKKNPVMAATQFAVPR------------RNAMALILSSYIFSDFGF---RNTAL 92
H+TAS KK P+ +F + R + L+ S Y S G R L
Sbjct: 192 HLTASEAKKLPI---QEFHLSRILQELGLNQEQFVDLCILLGSDYCESIRGIGPKRAVDL 248
Query: 93 AQQSVGFREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVSVEL 143
Q+ E + D + P+NW+ A + +P VLD SVEL
Sbjct: 249 IQKHKSIEEIVRRLDPNKYPVPENWLHKE---AHQLFLEPEVLDPE-SVEL 295
>pdb|1UL1|X Chain X, Crystal Structure Of The Human Fen1-Pcna Complex
pdb|1UL1|Y Chain Y, Crystal Structure Of The Human Fen1-Pcna Complex
pdb|1UL1|Z Chain Z, Crystal Structure Of The Human Fen1-Pcna Complex
Length = 379
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 31/111 (27%), Positives = 44/111 (39%), Gaps = 22/111 (19%)
Query: 48 HVTASNEKKNPVMAATQFAVPR------------RNAMALILSSYIFSDFGF---RNTAL 92
H+TAS KK P+ +F + R + L+ S Y S G R L
Sbjct: 192 HLTASEAKKLPIQ---EFHLSRILQELGLNQEQFVDLCILLGSDYCESIRGIGPKRAVDL 248
Query: 93 AQQSVGFREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVSVEL 143
Q+ E + D + P+NW+ A + +P VLD SVEL
Sbjct: 249 IQKHKSIEEIVRRLDPNKYPVPENWLHKE---AHQLFLEPEVLDPE-SVEL 295
>pdb|2BOL|A Chain A, Crystal Structure And Assembly Of Tsp36, A Metazoan Small
Heat Shock Protein
pdb|2BOL|B Chain B, Crystal Structure And Assembly Of Tsp36, A Metazoan Small
Heat Shock Protein
Length = 314
Score = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 30/60 (50%), Gaps = 11/60 (18%)
Query: 169 RQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEVNIKSF--------ANNNELAV 220
R++ E T+ G E + L + V DGRL++ V N+K+F A+ N+L V
Sbjct: 83 REFHPELEYTQPG---ELDFLKDAYEVGKDGRLHFKVYFNVKNFKAEEITIKADKNKLVV 139
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 0.133 0.381
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,483,610
Number of Sequences: 62578
Number of extensions: 287715
Number of successful extensions: 664
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 659
Number of HSP's gapped (non-prelim): 9
length of query: 279
length of database: 14,973,337
effective HSP length: 98
effective length of query: 181
effective length of database: 8,840,693
effective search space: 1600165433
effective search space used: 1600165433
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: 51 (24.3 bits)