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= 042636
(219 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1XI4|A Chain A, Clathrin D6 Coat
pdb|1XI4|B Chain B, Clathrin D6 Coat
pdb|1XI4|C Chain C, Clathrin D6 Coat
pdb|1XI4|D Chain D, Clathrin D6 Coat
pdb|1XI4|E Chain E, Clathrin D6 Coat
pdb|1XI4|F Chain F, Clathrin D6 Coat
pdb|1XI4|G Chain G, Clathrin D6 Coat
pdb|1XI4|H Chain H, Clathrin D6 Coat
pdb|1XI4|I Chain I, Clathrin D6 Coat
pdb|1XI5|A Chain A, Clathrin D6 Coat With Auxilin J-Domain
pdb|1XI5|B Chain B, Clathrin D6 Coat With Auxilin J-Domain
pdb|1XI5|C Chain C, Clathrin D6 Coat With Auxilin J-Domain
pdb|1XI5|D Chain D, Clathrin D6 Coat With Auxilin J-Domain
pdb|1XI5|E Chain E, Clathrin D6 Coat With Auxilin J-Domain
pdb|1XI5|F Chain F, Clathrin D6 Coat With Auxilin J-Domain
pdb|1XI5|G Chain G, Clathrin D6 Coat With Auxilin J-Domain
pdb|1XI5|H Chain H, Clathrin D6 Coat With Auxilin J-Domain
pdb|1XI5|I Chain I, Clathrin D6 Coat With Auxilin J-Domain
pdb|3IYV|A Chain A, Clathrin D6 Coat As Full-Length Triskelions
pdb|3IYV|B Chain B, Clathrin D6 Coat As Full-Length Triskelions
pdb|3IYV|C Chain C, Clathrin D6 Coat As Full-Length Triskelions
pdb|3IYV|D Chain D, Clathrin D6 Coat As Full-Length Triskelions
pdb|3IYV|E Chain E, Clathrin D6 Coat As Full-Length Triskelions
pdb|3IYV|F Chain F, Clathrin D6 Coat As Full-Length Triskelions
pdb|3IYV|G Chain G, Clathrin D6 Coat As Full-Length Triskelions
pdb|3IYV|H Chain H, Clathrin D6 Coat As Full-Length Triskelions
pdb|3IYV|I Chain I, Clathrin D6 Coat As Full-Length Triskelions
Length = 1630
Score = 31.6 bits (70), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 34/71 (47%), Gaps = 13/71 (18%)
Query: 58 LENLESLTVLMASKDEILDLQ---SLSSPPQYLQRLYLTGNMKKL----------PDWIF 104
LE E L L+ S D L L + P + +Q TG ++K+ PDWIF
Sbjct: 457 LECSEELGDLVKSVDPTLALSVYLRANVPNKVIQCFAETGQVQKIVLYAKKVGYTPDWIF 516
Query: 105 KLKNVIRLGLD 115
L+NV+R+ D
Sbjct: 517 LLRNVMRISPD 527
>pdb|1ZWK|A Chain A, Structure Of Wrba From Pseudomonas Aeruginosa
pdb|1ZWK|B Chain B, Structure Of Wrba From Pseudomonas Aeruginosa
pdb|1ZWL|A Chain A, Structure Of Wrba From Pseudomonas Aeruginosa In Complex
With Fmn
Length = 207
Score = 31.2 bits (69), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 32/110 (29%), Positives = 50/110 (45%), Gaps = 16/110 (14%)
Query: 53 ALIANLENLESLTVLMASKDEILDLQSLSSPPQYL----QRLYLTGNMKKLPDWIFKLKN 108
AL A LE+L++ L +++SP +Y L+LTG++ P +F
Sbjct: 68 ALYATLEDLKNCAGLALGSP--TRFGNMASPLKYFLDGTSSLWLTGSLVGKPAAVFTSTA 125
Query: 109 VIRLGLDLSGLTED-PL--------RVPHALPNLLELRLGGTYNYKLFHF 149
+ G + + L+ PL +P++ P LLE R GGT Y HF
Sbjct: 126 SLHGGQETTQLSMLLPLLHHGMLVLGIPYSEPALLETRGGGT-PYGASHF 174
>pdb|1CEV|A Chain A, Arginase From Bacillus Caldovelox, Native Structure At Ph
5.6
pdb|1CEV|B Chain B, Arginase From Bacillus Caldovelox, Native Structure At Ph
5.6
pdb|1CEV|C Chain C, Arginase From Bacillus Caldovelox, Native Structure At Ph
5.6
pdb|1CEV|D Chain D, Arginase From Bacillus Caldovelox, Native Structure At Ph
5.6
pdb|1CEV|E Chain E, Arginase From Bacillus Caldovelox, Native Structure At Ph
5.6
pdb|1CEV|F Chain F, Arginase From Bacillus Caldovelox, Native Structure At Ph
5.6
pdb|2CEV|A Chain A, Arginase From Bacillus Caldevelox, Native Structure At Ph
8.5
pdb|2CEV|B Chain B, Arginase From Bacillus Caldevelox, Native Structure At Ph
8.5
pdb|2CEV|C Chain C, Arginase From Bacillus Caldevelox, Native Structure At Ph
8.5
pdb|2CEV|D Chain D, Arginase From Bacillus Caldevelox, Native Structure At Ph
8.5
pdb|2CEV|E Chain E, Arginase From Bacillus Caldevelox, Native Structure At Ph
8.5
pdb|2CEV|F Chain F, Arginase From Bacillus Caldevelox, Native Structure At Ph
8.5
pdb|3CEV|A Chain A, Arginase From Bacillus Caldevelox, Complexed With
L-arginine
pdb|3CEV|B Chain B, Arginase From Bacillus Caldevelox, Complexed With
L-arginine
pdb|3CEV|C Chain C, Arginase From Bacillus Caldevelox, Complexed With
L-arginine
pdb|3CEV|D Chain D, Arginase From Bacillus Caldevelox, Complexed With
L-arginine
pdb|3CEV|E Chain E, Arginase From Bacillus Caldevelox, Complexed With
L-arginine
pdb|3CEV|F Chain F, Arginase From Bacillus Caldevelox, Complexed With
L-arginine
pdb|4CEV|A Chain A, Arginase From Bacillus Caldevelox, L-Ornithine Complex
pdb|4CEV|B Chain B, Arginase From Bacillus Caldevelox, L-Ornithine Complex
pdb|4CEV|C Chain C, Arginase From Bacillus Caldevelox, L-Ornithine Complex
pdb|4CEV|D Chain D, Arginase From Bacillus Caldevelox, L-Ornithine Complex
pdb|4CEV|E Chain E, Arginase From Bacillus Caldevelox, L-Ornithine Complex
pdb|4CEV|F Chain F, Arginase From Bacillus Caldevelox, L-Ornithine Complex
pdb|5CEV|A Chain A, Arginase From Bacillus Caldevelox, L-Lysine Complex
pdb|5CEV|B Chain B, Arginase From Bacillus Caldevelox, L-Lysine Complex
pdb|5CEV|C Chain C, Arginase From Bacillus Caldevelox, L-Lysine Complex
pdb|5CEV|D Chain D, Arginase From Bacillus Caldevelox, L-Lysine Complex
pdb|5CEV|E Chain E, Arginase From Bacillus Caldevelox, L-Lysine Complex
pdb|5CEV|F Chain F, Arginase From Bacillus Caldevelox, L-Lysine Complex
Length = 299
Score = 30.8 bits (68), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 41/89 (46%), Gaps = 7/89 (7%)
Query: 87 LQRLYLTGNMKKLPDWIFKLKNVIRLGLDLSGLTEDPLRVPHALPNLLELRLGGTYNYKL 146
+ RL +T M++ ++ + + + L LDL GL DP P ++ G Y+
Sbjct: 198 VDRLGMTRVMEETIAYLKERTDGVHLSLDLDGL--DPSDAPGVGTPVI-----GGLTYRE 250
Query: 147 FHFEAGWFPKLQILTLFDFVAVKSVIIEK 175
H + QI+T +FV V ++ E+
Sbjct: 251 SHLAMEMLAEAQIITSAEFVEVNPILDER 279
>pdb|1QHO|A Chain A, Five-Domain Alpha-Amylase From Bacillus
Stearothermophilus, MaltoseACARBOSE COMPLEX
pdb|1QHP|A Chain A, Five-Domain Alpha-Amylase From Bacillus
Stearothermophilus, Maltose Complex
Length = 686
Score = 29.3 bits (64), Expect = 1.9, Method: Composition-based stats.
Identities = 15/44 (34%), Positives = 26/44 (59%), Gaps = 2/44 (4%)
Query: 60 NLESLTVLMASKDEILDLQSLSSPPQYL-QRLYLTGNMKKLPDW 102
NL S +L ++ ++ S+PP L ++YLTGN+ +L +W
Sbjct: 570 NLYSYNILSGTQTSVV-FTVKSAPPTNLGDKIYLTGNIPELGNW 612
>pdb|1RF4|A Chain A, Structural Studies Of Streptococcus Pneumoniae Epsp
Synthase, Tetrahedral Intermediate Bound State
pdb|1RF4|B Chain B, Structural Studies Of Streptococcus Pneumoniae Epsp
Synthase, Tetrahedral Intermediate Bound State
pdb|1RF4|C Chain C, Structural Studies Of Streptococcus Pneumoniae Epsp
Synthase, Tetrahedral Intermediate Bound State
pdb|1RF4|D Chain D, Structural Studies Of Streptococcus Pneumoniae Epsp
Synthase, Tetrahedral Intermediate Bound State
pdb|1RF5|A Chain A, Structural Studies Of Streptococcus Pneumoniae Epsp
Synthase In Unliganded State
pdb|1RF5|B Chain B, Structural Studies Of Streptococcus Pneumoniae Epsp
Synthase In Unliganded State
pdb|1RF5|C Chain C, Structural Studies Of Streptococcus Pneumoniae Epsp
Synthase In Unliganded State
pdb|1RF5|D Chain D, Structural Studies Of Streptococcus Pneumoniae Epsp
Synthase In Unliganded State
pdb|1RF6|A Chain A, Structural Studies Of Streptococcus Pneumoniae Epsp
Synthase In S3p-Glp Bound State
pdb|1RF6|B Chain B, Structural Studies Of Streptococcus Pneumoniae Epsp
Synthase In S3p-Glp Bound State
pdb|1RF6|C Chain C, Structural Studies Of Streptococcus Pneumoniae Epsp
Synthase In S3p-Glp Bound State
pdb|1RF6|D Chain D, Structural Studies Of Streptococcus Pneumoniae Epsp
Synthase In S3p-Glp Bound State
Length = 427
Score = 28.5 bits (62), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 34/69 (49%), Gaps = 14/69 (20%)
Query: 111 RLGLDLSGLTEDPLRVPHALPNLLELRLGGTYNYKLFHFEAGWFPKLQILTLFDFVAVK- 169
++G+ +SG TE +L LRL GT N + H+E Q+ + F A++
Sbjct: 131 KMGVSISGQTE---------RDLPPLRLKGTKNLRPIHYEL-PIASAQVKSALMFAALQA 180
Query: 170 ---SVIIEK 175
SVIIEK
Sbjct: 181 KGESVIIEK 189
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 27.7 bits (60), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 33/75 (44%), Positives = 40/75 (53%), Gaps = 11/75 (14%)
Query: 75 LDLQS--LSSPPQY-------LQRLYLTGN-MKKLPDWIFK-LKNVIRLGLDLSGLTEDP 123
LDLQS LSS P L+ LYL N ++ LP IFK LKN+ L + + L P
Sbjct: 42 LDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNKLQALP 101
Query: 124 LRVPHALPNLLELRL 138
+ V L NL ELRL
Sbjct: 102 IGVFDQLVNLAELRL 116
>pdb|3RG1|A Chain A, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|E Chain E, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|I Chain I, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|M Chain M, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|B Chain B, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|F Chain F, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|J Chain J, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|N Chain N, Crystal Structure Of The Rp105MD-1 Complex
Length = 612
Score = 26.9 bits (58), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 37/68 (54%), Gaps = 5/68 (7%)
Query: 55 IANLENLESLTVLMASKDEILDLQSLSSPPQYLQRLYLTGNMKKL---PDWIFKLKNVIR 111
I + +L+ L + S D++ + + S P L+ LY+ GNM+KL + KL+N+ +
Sbjct: 296 IEGMNSLKKLVLNANSFDQLCQINAASFPS--LRDLYIKGNMRKLDLGTRCLEKLENLQK 353
Query: 112 LGLDLSGL 119
L L S +
Sbjct: 354 LDLSHSDI 361
>pdb|3K6J|A Chain A, Crystal Structure Of The Dehydrogenase Part Of
Multifuctional Enzyme 1 From C.Elegans
Length = 460
Score = 26.9 bits (58), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 34/82 (41%), Gaps = 17/82 (20%)
Query: 1 VAKVHRGLGSLMDLQKLSIIEADSQVLKELMKLRQLRKLGIRPKNGNGKDVCALIANLEN 60
+ K++ L D KLS + + + E MKL++ L ANLEN
Sbjct: 112 IEKINANLKITSDFHKLSNCDLIVESVIEDMKLKK-----------------ELFANLEN 154
Query: 61 LESLTVLMASKDEILDLQSLSS 82
+ T + + LDL +SS
Sbjct: 155 ICKSTCIFGTNTSSLDLNEISS 176
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
0.324 0.143 0.424
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,263,654
Number of Sequences: 62578
Number of extensions: 248861
Number of successful extensions: 580
Number of sequences better than 100.0: 29
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 27
Number of HSP's that attempted gapping in prelim test: 578
Number of HSP's gapped (non-prelim): 30
length of query: 219
length of database: 14,973,337
effective HSP length: 95
effective length of query: 124
effective length of database: 9,028,427
effective search space: 1119524948
effective search space used: 1119524948
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 49 (23.5 bits)