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= 033108
(127 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2CBP|A Chain A, Cucumber Basic Protein, A Blue Copper Protein
Length = 96
Score = 144 bits (364), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 61/94 (64%), Positives = 78/94 (82%)
Query: 34 YTVGDSGGWSFNMASWAKGKRFKAGDTLVFNYDPTLHNVVAVNRAGYRSCTAPGGAKVYS 93
Y VG SGGW+FN SW KGKRF+AGD L+FNY+P++HNVV VN+ G+ +C P GAKVY+
Sbjct: 3 YVVGGSGGWTFNTESWPKGKRFRAGDILLFNYNPSMHNVVVVNQGGFSTCNTPAGAKVYT 62
Query: 94 SGKDRIKLVRGQNFFICNSAGHCGSGMKIAINAM 127
SG+D+IKL +GQ++FICN GHC SGMKIA+NA+
Sbjct: 63 SGRDQIKLPKGQSYFICNFPGHCQSGMKIAVNAL 96
>pdb|1F56|A Chain A, Spinach Plantacyanin
pdb|1F56|B Chain B, Spinach Plantacyanin
pdb|1F56|C Chain C, Spinach Plantacyanin
Length = 91
Score = 119 bits (299), Expect = 4e-28, Method: Compositional matrix adjust.
Identities = 59/86 (68%), Positives = 68/86 (79%), Gaps = 1/86 (1%)
Query: 41 GWSFNMASWAKGKRFKAGDTLVFNYDPTLHNVVAVNRAGYRSCTAPGGAKVYSSGKDRIK 100
GWSFN+ + A+GK F+AGD LVF Y HNVVAVN GY SC+AP GA+ YSSG+DRIK
Sbjct: 6 GWSFNV-NGARGKSFRAGDVLVFKYIKGQHNVVAVNGRGYASCSAPRGARTYSSGQDRIK 64
Query: 101 LVRGQNFFICNSAGHCGSGMKIAINA 126
L RGQN+FIC+ GHCG GMKIAINA
Sbjct: 65 LTRGQNYFICSFPGHCGGGMKIAINA 90
>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 = 86.3 bits (212), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 41/99 (41%), Positives = 59/99 (59%), Gaps = 5/99 (5%)
Query: 31 ATTYTVGDSGGWS----FNMASWAKGKRFKAGDTLVFNYDPTLHNVVAVNRAGYRSCTAP 86
AT + VGDS GW+ ++ A WA +F GD+L+FNY+ HNV+ V++ ++SC +
Sbjct: 2 ATVHKVGDSTGWTTLVPYDYAKWASSNKFHVGDSLLFNYNNKFHNVLQVDQEQFKSCNSS 61
Query: 87 GGAKVYSSGKDRIKLVR-GQNFFICNSAGHCGSGMKIAI 124
A Y+SG D I L R G +F+C GHC G K+ I
Sbjct: 62 SPAASYTSGADSIPLKRPGTFYFLCGIPGHCQLGQKVEI 100
>pdb|1JER|A Chain A, Cucumber Stellacyanin, Cu2+, Ph 7.0
Length = 138
Score = 57.8 bits (138), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 32/108 (29%), Positives = 56/108 (51%), Gaps = 10/108 (9%)
Query: 29 VDATTYTVGDSGGWSFN-----MASWAKGKRFKAGDTLVFNYDPTLHNVVAVN-RAGYRS 82
+ +T + VGD+ GWS + WA GK F+ GD+L FN+ HNV + + + +
Sbjct: 1 MQSTVHIVGDNTGWSVPSSPNFYSQWAAGKTFRVGDSLQFNFPANAHNVHEMETKQSFDA 60
Query: 83 C---TAPGGAKVYSSGKDRIKLVRGQNFFICNSAGHCGSGMKIAINAM 127
C + + S +R+ + G ++F+C HC +G K++IN +
Sbjct: 61 CNFVNSDNDVERTSPVIERLDEL-GMHYFVCTVGTHCSNGQKLSINVV 107
>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 = 53.1 bits (126), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 41/81 (50%), Gaps = 1/81 (1%)
Query: 48 SWAKGKRFKAGDTLVFNYDPTLHNVVAVNRAGYRSCTAPGGAKVYSSGKDRIKL-VRGQN 106
+WA GK F+ GD L F++ +H+V V + + +C ++ +I L G
Sbjct: 23 TWATGKTFRVGDELEFDFAAGMHDVAVVTKDAFDNCKKENPISHMTTPPVKIMLNTTGPQ 82
Query: 107 FFICNSAGHCGSGMKIAINAM 127
++IC HC G K++IN +
Sbjct: 83 YYICTVGDHCRVGQKLSINVV 103
>pdb|3F2L|A Chain A, Crystal Structure Analysis Of The K171a Mutation Of N-
Terminal Type Ii Cohesin 1 From The Cellulosomal Scab
Subunit Of Acetivibrio Cellulolyticus
Length = 175
Score = 26.9 bits (58), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 31/70 (44%), Gaps = 5/70 (7%)
Query: 26 IEIV-DATTYTVGDSGGWSFNMASWAKGKRFKAGDTLVFNYDPTLHNVVAVNRAGYRSCT 84
IEIV D TT +VG+ S N+ K +G L YDP + V + Y T
Sbjct: 7 IEIVLDKTTASVGEIVTASINI----KNITNFSGCQLNMKYDPAVLQPVTSSGVAYTKST 62
Query: 85 APGGAKVYSS 94
PG + +S
Sbjct: 63 MPGAGTILNS 72
>pdb|2AGJ|H Chain H, Crystal Structure Of A Glycosylated Fab From An Igm
Cryoglobulin With Properties Of A Natural Proteolytic
Antibody
Length = 226
Score = 26.9 bits (58), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 10/34 (29%), Positives = 15/34 (44%)
Query: 19 ICLLLVYIEIVDATTYTVGDSGGWSFNMASWAKG 52
+ L L ++ VD TY + GW W +G
Sbjct: 80 VVLTLTNLDPVDTATYYCARTSGWDIEFEYWGQG 113
>pdb|3BWZ|A Chain A, Crystal Structure Of The Type Ii Cohesin Module From The
Cellulosome Of Acetivibrio Cellulolyticus With An
Extended Linker Conformation
Length = 181
Score = 26.6 bits (57), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 31/70 (44%), Gaps = 5/70 (7%)
Query: 26 IEIV-DATTYTVGDSGGWSFNMASWAKGKRFKAGDTLVFNYDPTLHNVVAVNRAGYRSCT 84
IEIV D TT +VG+ S N+ K +G L YDP + V + Y T
Sbjct: 7 IEIVLDKTTASVGEIVTASINI----KNITNFSGCQLNMKYDPAVLQPVTSSGVAYTKST 62
Query: 85 APGGAKVYSS 94
PG + +S
Sbjct: 63 MPGAGTILNS 72
>pdb|1QZN|A Chain A, Crystal Structure Analysis Of A Type Ii Cohesin Domain
From The Cellulosome Of Acetivibrio Cellulolyticus
Length = 173
Score = 26.6 bits (57), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 31/70 (44%), Gaps = 5/70 (7%)
Query: 26 IEIV-DATTYTVGDSGGWSFNMASWAKGKRFKAGDTLVFNYDPTLHNVVAVNRAGYRSCT 84
IEIV D TT +VG+ S N+ K +G L YDP + V + Y T
Sbjct: 7 IEIVLDKTTASVGEIVTASINI----KNITNFSGCQLNMKYDPAVLQPVTSSGVAYTKST 62
Query: 85 APGGAKVYSS 94
PG + +S
Sbjct: 63 MPGAGTILNS 72
>pdb|3H0G|A Chain A, Rna Polymerase Ii From Schizosaccharomyces Pombe
pdb|3H0G|M Chain M, Rna Polymerase Ii From Schizosaccharomyces Pombe
Length = 1752
Score = 26.2 bits (56), Expect = 4.5, Method: Composition-based stats.
Identities = 8/24 (33%), Positives = 14/24 (58%)
Query: 49 WAKGKRFKAGDTLVFNYDPTLHNV 72
W + + GD ++FN P+LH +
Sbjct: 436 WRVERHIRDGDVVIFNRQPSLHKM 459
>pdb|3L8Q|A Chain A, Structure Analysis Of The Type Ii Cohesin Dyad From The
Adap Scaffoldin Of Acetivibrio Cellulolyticus
pdb|3L8Q|B Chain B, Structure Analysis Of The Type Ii Cohesin Dyad From The
Adap Scaffoldin Of Acetivibrio Cellulolyticus
pdb|3L8Q|C Chain C, Structure Analysis Of The Type Ii Cohesin Dyad From The
Adap Scaffoldin Of Acetivibrio Cellulolyticus
pdb|3L8Q|D Chain D, Structure Analysis Of The Type Ii Cohesin Dyad From The
Adap Scaffoldin Of Acetivibrio Cellulolyticus
Length = 350
Score = 26.2 bits (56), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 31/70 (44%), Gaps = 5/70 (7%)
Query: 26 IEIV-DATTYTVGDSGGWSFNMASWAKGKRFKAGDTLVFNYDPTLHNVVAVNRAGYRSCT 84
IEIV D TT +VG+ S N+ K +G L YDP + V + Y T
Sbjct: 7 IEIVLDKTTASVGEIVTASINI----KNITNFSGCQLNMKYDPAVLQPVTSSGVAYTKST 62
Query: 85 APGGAKVYSS 94
PG + +S
Sbjct: 63 MPGAGTILNS 72
>pdb|1ZV9|A Chain A, Crystal Structure Analysis Of A Type Ii Cohesin Domain
From The Cellulosome Of Acetivibrio Cellulolyticus-
Semet Derivative
Length = 172
Score = 25.8 bits (55), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 31/70 (44%), Gaps = 5/70 (7%)
Query: 26 IEIV-DATTYTVGDSGGWSFNMASWAKGKRFKAGDTLVFNYDPTLHNVVAVNRAGYRSCT 84
IEIV D TT +VG+ S N+ K +G L YDP + V + Y T
Sbjct: 6 IEIVLDKTTASVGEIVTASINI----KNITNFSGCQLNXKYDPAVLQPVTSSGVAYTKST 61
Query: 85 APGGAKVYSS 94
PG + +S
Sbjct: 62 XPGAGTILNS 71
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
0.323 0.135 0.423
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,980,020
Number of Sequences: 62578
Number of extensions: 157987
Number of successful extensions: 271
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 259
Number of HSP's gapped (non-prelim): 12
length of query: 127
length of database: 14,973,337
effective HSP length: 87
effective length of query: 40
effective length of database: 9,529,051
effective search space: 381162040
effective search space used: 381162040
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 45 (21.9 bits)