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= 040442
(522 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2OVP|B Chain B, Structure Of The Skp1-Fbw7 Complex
pdb|2OVQ|B Chain B, Structure Of The Skp1-Fbw7-Cyclinedegc Complex
pdb|2OVR|B Chain B, Structure Of The Skp1-Fbw7-Cyclinedegn Complex
Length = 445
Score = 32.3 bits (72), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 24/45 (53%)
Query: 375 LPTELKLKLLECLPGVDVAKMECVSRDMRYLASNNELWRQKFVEE 419
LP EL L +L L D+ + R R LA +N LWR+K EE
Sbjct: 22 LPKELALYVLSFLEPKDLLQAAQTCRYWRILAEDNLLWREKCKEE 66
>pdb|1B1Y|A Chain A, Sevenfold Mutant Of Barley Beta-Amylase
Length = 500
Score = 32.0 bits (71), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 29/55 (52%), Gaps = 1/55 (1%)
Query: 62 HSLGVTAGDLIFYSRDPYAFVSQTLESETQSVNKACTS-RDNDEIPDGKLDKQEI 115
H+ +TAG + RD Y +++ L+ S+N C RD+++ PD +E+
Sbjct: 302 HAAELTAGYYNLHDRDGYRTIARMLKRHRASINFTCAEMRDSEQPPDAMSAPEEL 356
>pdb|4AED|A Chain A, Crystal Structure Of Human Enterovirus 71
Length = 297
Score = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 36/67 (53%), Gaps = 9/67 (13%)
Query: 82 VSQTLESET-QSVNKACT------SRDNDEIPDGKLDKQEIPVLESVEIGVNLQESKSEE 134
V+ +ES SV++A T + N ++ +LD E+P L++ EIG + + S+E
Sbjct: 4 VADVIESSIGDSVSRALTQALPAPTGQNTQVSSHRLDTGEVPALQAAEIGAS--SNTSDE 61
Query: 135 AVISQDC 141
++I C
Sbjct: 62 SMIETRC 68
>pdb|3VBF|A Chain A, Crystal Structure Of Formaldehyde Treated Human
Enterovirus 71 (Space Group I23)
pdb|3VBH|A Chain A, Crystal Structure Of Formaldehyde Treated Human
Enterovirus 71 (Space Group R32)
pdb|3VBO|A Chain A, Crystal Structure Of Formaldehyde Treated Empty Human
Enterovirus 71 Particle (Cryo At 100k)
pdb|3VBS|A Chain A, Crystal Structure Of Human Enterovirus 71
Length = 297
Score = 30.4 bits (67), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 36/67 (53%), Gaps = 9/67 (13%)
Query: 82 VSQTLESET-QSVNKACT------SRDNDEIPDGKLDKQEIPVLESVEIGVNLQESKSEE 134
V+ +ES SV++A T + N ++ +LD ++P L++ EIG + + S+E
Sbjct: 4 VADVIESSIGDSVSRALTHALPAPTGQNTQVSSHRLDTGKVPALQAAEIGAS--SNASDE 61
Query: 135 AVISQDC 141
++I C
Sbjct: 62 SMIETRC 68
>pdb|3FKR|A Chain A, Structure Of L-2-Keto-3-Deoxyarabonate Dehydratase Complex
With Pyruvate
pdb|3FKR|B Chain B, Structure Of L-2-Keto-3-Deoxyarabonate Dehydratase Complex
With Pyruvate
Length = 309
Score = 30.4 bits (67), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 10/31 (32%), Positives = 19/31 (61%)
Query: 340 EVFEFWKNVKDGLALPLLIDLCDKAGLCLPA 370
++FEF+ V D +A+P+++ +G L A
Sbjct: 124 QIFEFYARVSDAIAIPIMVQDAPASGTALSA 154
>pdb|3FKK|A Chain A, Structure Of L-2-Keto-3-Deoxyarabonate Dehydratase
pdb|3FKK|B Chain B, Structure Of L-2-Keto-3-Deoxyarabonate Dehydratase
Length = 309
Score = 30.0 bits (66), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 10/31 (32%), Positives = 19/31 (61%)
Query: 340 EVFEFWKNVKDGLALPLLIDLCDKAGLCLPA 370
++FEF+ V D +A+P+++ +G L A
Sbjct: 124 QIFEFYARVSDAIAIPIMVQDAPASGTALSA 154
>pdb|2DTU|A Chain A, Crystal Structure Of The Beta Hairpin Loop Deletion
Variant Of Rb69 Gp43 In Complex With Dna Containing An
Abasic Site Analog
pdb|2DTU|B Chain B, Crystal Structure Of The Beta Hairpin Loop Deletion
Variant Of Rb69 Gp43 In Complex With Dna Containing An
Abasic Site Analog
pdb|2DTU|C Chain C, Crystal Structure Of The Beta Hairpin Loop Deletion
Variant Of Rb69 Gp43 In Complex With Dna Containing An
Abasic Site Analog
pdb|2DTU|D Chain D, Crystal Structure Of The Beta Hairpin Loop Deletion
Variant Of Rb69 Gp43 In Complex With Dna Containing An
Abasic Site Analog
Length = 896
Score = 30.0 bits (66), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 34/122 (27%), Positives = 47/122 (38%), Gaps = 24/122 (19%)
Query: 120 SVEIGVNLQESKSEEAVISQDCGIPDAMLDKQHYPVQESEKIEVSSVDSKEHMSKKETLE 179
S+EI LQE +E +P ++DK Y ++EK + E L
Sbjct: 163 SIEIAAKLQEQGGDE--------VPSEIIDKIIYMPFDNEKELLM-----------EYLN 203
Query: 180 FLNTDTMEIDEG----SVVMPEPY-FLRRVLGEKLGDRLGPHGLVIVAVHEILLESGFVG 234
F T I G S +P Y ++ + GE RL PH V V EI+ G
Sbjct: 204 FWQQKTPVILTGWNVESFAIPYVYNRIKNIFGESTAKRLSPHRKTRVKVGEIITLFGISV 263
Query: 235 FD 236
D
Sbjct: 264 LD 265
>pdb|1FQV|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|E Chain E, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|G Chain G, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|I Chain I, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|K Chain K, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|M Chain M, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|O Chain O, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|2ASS|B Chain B, Crystal Structure Of The Skp1-Skp2-Cks1 Complex
pdb|2AST|B Chain B, Crystal Structure Of Skp1-Skp2-Cks1 In Complex With A P27
Peptide
Length = 336
Score = 28.9 bits (63), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 22/42 (52%)
Query: 372 WTHLPTELKLKLLECLPGVDVAKMECVSRDMRYLASNNELWR 413
W LP EL L + CL ++ K+ V + LAS+ LW+
Sbjct: 9 WDSLPDELLLGIFSCLCLPELLKVSGVCKRWYRLASDESLWQ 50
>pdb|1FS2|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FS2|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
Length = 272
Score = 28.9 bits (63), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 26/49 (53%), Gaps = 2/49 (4%)
Query: 372 WTHLPTELKLKLLECLPGVDVAKMECVSRDMRYLASNNELWRQKFVEEF 420
W LP EL L + CL ++ K+ V + LAS+ LW+ ++EF
Sbjct: 9 WDSLPDELLLGIFSCLCLPELLKVSGVCKRWYRLASDESLWQT--LDEF 55
>pdb|1FS1|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FS1|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
Length = 53
Score = 28.5 bits (62), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 22/42 (52%)
Query: 372 WTHLPTELKLKLLECLPGVDVAKMECVSRDMRYLASNNELWR 413
W LP EL L + CL ++ K+ V + LAS+ LW+
Sbjct: 9 WDSLPDELLLGIFSCLCLPELLKVSGVCKRWYRLASDESLWQ 50
>pdb|1GVF|A Chain A, Structure Of Tagatose-1,6-Bisphosphate Aldolase
pdb|1GVF|B Chain B, Structure Of Tagatose-1,6-Bisphosphate Aldolase
Length = 286
Score = 28.5 bits (62), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 32/122 (26%), Positives = 54/122 (44%), Gaps = 10/122 (8%)
Query: 141 CGIPDAMLDKQHYPVQESEKIEVSSVD--SKEHMSKKETLEFLN--TDTMEIDEGSVVMP 196
G+ AM+D H+P E+ K+ S VD + S + L L D M +D S +
Sbjct: 96 AGVRSAMIDGSHFPFAENVKLVKSVVDFCHSQDCSVEAELGRLGGVEDDMSVDAESAFLT 155
Query: 197 EPYFLRRVLGEKLGDRLGPHGLVIVAVHEILLESGFVGFDSESGMRIDQFDLPDHLLLKG 256
+P +R + D L + I H + ++ + F + +R + D+P L+L G
Sbjct: 156 DPQEAKRFVELTGVDSL---AVAIGTAHGLYSKTPKIDFQRLAEIR-EVVDVP--LVLHG 209
Query: 257 VS 258
S
Sbjct: 210 AS 211
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
0.318 0.138 0.421
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,350,904
Number of Sequences: 62578
Number of extensions: 713475
Number of successful extensions: 1323
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1312
Number of HSP's gapped (non-prelim): 19
length of query: 522
length of database: 14,973,337
effective HSP length: 103
effective length of query: 419
effective length of database: 8,527,803
effective search space: 3573149457
effective search space used: 3573149457
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)