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= 031614
(156 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1X9R|A Chain A, Umecyanin From Horse Raddish- Crystal Structure Of The
Oxidised Form
pdb|1X9R|B Chain B, Umecyanin From Horse Raddish- Crystal Structure Of The
Oxidised Form
pdb|1X9U|A Chain A, Umecyanin From Horse Raddish- Crystal Structure Of The
Reduced Form
pdb|1X9U|B Chain B, Umecyanin From Horse Raddish- Crystal Structure Of The
Reduced Form
Length = 116
Score = 87.8 bits (216), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 40/93 (43%), Positives = 61/93 (65%), Gaps = 3/93 (3%)
Query: 31 LHWIVPTSADYYTNWISNKTFEVGDSVMFNWST-THNVADVSKSEYDDCSKTSSV--VAS 87
+ W P+ +Y W + KTF VGD + F+++ H+VA V+K +D+C K + + + +
Sbjct: 10 MEWKRPSDPKFYITWATGKTFRVGDELEFDFAAGMHDVAVVTKDAFDNCKKENPISHMTT 69
Query: 88 HPVQIQLNSTGSRYFICTVDDHCGRGQKLAITV 120
PV+I LN+TG +Y+ICTV DHC GQKL+I V
Sbjct: 70 PPVKIMLNTTGPQYYICTVGDHCRVGQKLSINV 102
>pdb|1JER|A Chain A, Cucumber Stellacyanin, Cu2+, Ph 7.0
Length = 138
Score = 77.4 bits (189), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 40/93 (43%), Positives = 59/93 (63%), Gaps = 5/93 (5%)
Query: 33 WIVPTSADYYTNWISNKTFEVGDSVMFNW-STTHNVADV-SKSEYDDCSKTSS---VVAS 87
W VP+S ++Y+ W + KTF VGDS+ FN+ + HNV ++ +K +D C+ +S V +
Sbjct: 14 WSVPSSPNFYSQWAAGKTFRVGDSLQFNFPANAHNVHEMETKQSFDACNFVNSDNDVERT 73
Query: 88 HPVQIQLNSTGSRYFICTVDDHCGRGQKLAITV 120
PV +L+ G YF+CTV HC GQKL+I V
Sbjct: 74 SPVIERLDELGMHYFVCTVGTHCSNGQKLSINV 106
>pdb|1WS7|A Chain A, Crystal Structure Of Mavicyanin From Cucurbita Pepo
Medullosa (Zucchini)
pdb|1WS7|B Chain B, Crystal Structure Of Mavicyanin From Cucurbita Pepo
Medullosa (Zucchini)
pdb|1WS7|C Chain C, Crystal Structure Of Mavicyanin From Cucurbita Pepo
Medullosa (Zucchini)
pdb|1WS7|D Chain D, Crystal Structure Of Mavicyanin From Cucurbita Pepo
Medullosa (Zucchini)
pdb|1WS8|A Chain A, Crystal Structure Of Mavicyanin From Cucurbita Pepo
Medullosa (zucchini)
pdb|1WS8|B Chain B, Crystal Structure Of Mavicyanin From Cucurbita Pepo
Medullosa (zucchini)
pdb|1WS8|C Chain C, Crystal Structure Of Mavicyanin From Cucurbita Pepo
Medullosa (zucchini)
pdb|1WS8|D Chain D, Crystal Structure Of Mavicyanin From Cucurbita Pepo
Medullosa (zucchini)
Length = 109
Score = 59.7 bits (143), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 30/82 (36%), Positives = 45/82 (54%), Gaps = 3/82 (3%)
Query: 42 YTNWISNKTFEVGDSVMFNWSTT-HNVADVSKSEYDDCSKTSSVVA--SHPVQIQLNSTG 98
Y W S+ F VGDS++FN++ HNV V + ++ C+ +S + S I L G
Sbjct: 21 YAKWASSNKFHVGDSLLFNYNNKFHNVLQVDQEQFKSCNSSSPAASYTSGADSIPLKRPG 80
Query: 99 SRYFICTVDDHCGRGQKLAITV 120
+ YF+C + HC GQK+ I V
Sbjct: 81 TFYFLCGIPGHCQLGQKVEIKV 102
>pdb|1F56|A Chain A, Spinach Plantacyanin
pdb|1F56|B Chain B, Spinach Plantacyanin
pdb|1F56|C Chain C, Spinach Plantacyanin
Length = 91
Score = 51.2 bits (121), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 31/96 (32%), Positives = 46/96 (47%), Gaps = 10/96 (10%)
Query: 29 YKLHWIVPTSADYYTNWISNKTFEVGDSVMFNW-STTHNVADVSKSEYDDCS--KTSSVV 85
Y + W + N K+F GD ++F + HNV V+ Y CS + +
Sbjct: 3 YNIGW------SFNVNGARGKSFRAGDVLVFKYIKGQHNVVAVNGRGYASCSAPRGARTY 56
Query: 86 ASHPVQIQLNSTGSRYFICTVDDHCGRGQKLAITVK 121
+S +I+L + G YFIC+ HCG G K+AI K
Sbjct: 57 SSGQDRIKL-TRGQNYFICSFPGHCGGGMKIAINAK 91
>pdb|2CBP|A Chain A, Cucumber Basic Protein, A Blue Copper Protein
Length = 96
Score = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 40/79 (50%), Gaps = 4/79 (5%)
Query: 45 WISNKTFEVGDSVMFNWSTT-HNVADVSKSEYDDCSKTSS--VVASHPVQIQLNSTGSRY 101
W K F GD ++FN++ + HNV V++ + C+ + V S QI+L G Y
Sbjct: 18 WPKGKRFRAGDILLFNYNPSMHNVVVVNQGGFSTCNTPAGAKVYTSGRDQIKL-PKGQSY 76
Query: 102 FICTVDDHCGRGQKLAITV 120
FIC HC G K+A+
Sbjct: 77 FICNFPGHCQSGMKIAVNA 95
>pdb|1IHM|A Chain A, Crystal Structure Analysis Of Norwalk Virus Capsid
pdb|1IHM|B Chain B, Crystal Structure Analysis Of Norwalk Virus Capsid
pdb|1IHM|C Chain C, Crystal Structure Analysis Of Norwalk Virus Capsid
Length = 530
Score = 27.7 bits (60), Expect = 3.0, Method: Composition-based stats.
Identities = 21/86 (24%), Positives = 35/86 (40%), Gaps = 6/86 (6%)
Query: 71 SKSEYDDCSKTSSVVASHPVQIQLNSTGSRYFICTVD-----DHCGRGQKLAITVKNSGN 125
S+++YD T H IQ N GS ++ + H Q + N G+
Sbjct: 339 SQTQYD-VDTTPDTFVPHLGSIQANGIGSGNYVGVLSWISPPSHPSGSQVDLWKIPNYGS 397
Query: 126 DTSSASFVSVGALYPGLAISLVYFLS 151
+ A+ ++ PG LV+F+S
Sbjct: 398 SITEATHLAPSVYPPGFGEVLVFFMS 423
>pdb|2PMZ|A Chain A, Archaeal Rna Polymerase From Sulfolobus Solfataricus
pdb|2PMZ|Q Chain Q, Archaeal Rna Polymerase From Sulfolobus Solfataricus
pdb|3HKZ|A Chain A, The X-Ray Crystal Structure Of Rna Polymerase From Archaea
pdb|3HKZ|I Chain I, The X-Ray Crystal Structure Of Rna Polymerase From Archaea
Length = 880
Score = 26.9 bits (58), Expect = 5.2, Method: Composition-based stats.
Identities = 9/26 (34%), Positives = 14/26 (53%)
Query: 28 EYKLHWIVPTSADYYTNWISNKTFEV 53
E LHW++ +D Y W+ + F V
Sbjct: 609 ESILHWLIKEYSDEYGKWLMDNLFRV 634
>pdb|2WAQ|A Chain A, The Complete Structure Of The Archaeal 13-Subunit Dna-
Directed Rna Polymerase
pdb|2WB1|A Chain A, The Complete Structure Of The Archaeal 13-Subunit Dna-
Directed Rna Polymerase
pdb|2WB1|W Chain W, The Complete Structure Of The Archaeal 13-Subunit Dna-
Directed Rna Polymerase
pdb|2Y0S|A Chain A, Crystal Structure Of Sulfolobus Shibatae Rna Polymerase In
P21 Space Group
pdb|2Y0S|W Chain W, Crystal Structure Of Sulfolobus Shibatae Rna Polymerase In
P21 Space Group
pdb|4AYB|A Chain A, Rnap At 3.2ang
pdb|4B1O|A Chain A, Archaeal Rnap-Dna Binary Complex At 4.32ang
pdb|4B1P|W Chain W, Archaeal Rnap-Dna Binary Complex At 4.32ang
Length = 880
Score = 26.9 bits (58), Expect = 5.2, Method: Composition-based stats.
Identities = 9/26 (34%), Positives = 14/26 (53%)
Query: 28 EYKLHWIVPTSADYYTNWISNKTFEV 53
E LHW++ +D Y W+ + F V
Sbjct: 609 ESILHWLIKEYSDEYGKWLMDNLFRV 634
>pdb|2ZL5|A Chain A, Atomic Resolution Structural Characterization Of
Recognition Of Histo-Blood Group Antigen By Norwalk
Virus
pdb|2ZL5|B Chain B, Atomic Resolution Structural Characterization Of
Recognition Of Histo-Blood Group Antigen By Norwalk
Virus
Length = 295
Score = 26.2 bits (56), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 21/86 (24%), Positives = 35/86 (40%), Gaps = 6/86 (6%)
Query: 71 SKSEYDDCSKTSSVVASHPVQIQLNSTGSRYFICTV-----DDHCGRGQKLAITVKNSGN 125
S+++YD T H IQ N GS ++ + H Q + N G+
Sbjct: 115 SQTQYD-VDTTPDTFVPHLGSIQANGIGSGNYVGVLSWISPPSHPSGSQVDLWKIPNYGS 173
Query: 126 DTSSASFVSVGALYPGLAISLVYFLS 151
+ A+ ++ PG LV+F+S
Sbjct: 174 SITEATHLAPSVYPPGFGEVLVFFMS 199
>pdb|2ZL6|A Chain A, Atomic Resolution Structural Characterization Of
Recognition Of Histo- Blood Group Antigens By Norwalk
Virus
pdb|2ZL6|B Chain B, Atomic Resolution Structural Characterization Of
Recognition Of Histo- Blood Group Antigens By Norwalk
Virus
pdb|2ZL7|A Chain A, Atomic Resolution Structural Characterization Of
Recognition Of Histo-Blood Group Antigens By Norwalk
Virus
pdb|2ZL7|B Chain B, Atomic Resolution Structural Characterization Of
Recognition Of Histo-Blood Group Antigens By Norwalk
Virus
Length = 295
Score = 25.8 bits (55), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 21/86 (24%), Positives = 35/86 (40%), Gaps = 6/86 (6%)
Query: 71 SKSEYDDCSKTSSVVASHPVQIQLNSTGSRYFICTV-----DDHCGRGQKLAITVKNSGN 125
S+++YD T H IQ N GS ++ + H Q + N G+
Sbjct: 115 SQTQYD-VDTTPDTFVPHLGSIQANGIGSGNYVGVLSWISPPSHPSGSQVDLWKIPNYGS 173
Query: 126 DTSSASFVSVGALYPGLAISLVYFLS 151
+ A+ ++ PG LV+F+S
Sbjct: 174 SITEATHLAPSVYPPGFGEVLVFFMS 199
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 0.133 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,499,827
Number of Sequences: 62578
Number of extensions: 153107
Number of successful extensions: 406
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 394
Number of HSP's gapped (non-prelim): 15
length of query: 156
length of database: 14,973,337
effective HSP length: 91
effective length of query: 65
effective length of database: 9,278,739
effective search space: 603118035
effective search space used: 603118035
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: 47 (22.7 bits)