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= 016296
(392 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4B4T|W Chain W, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 268
Score = 204 bits (519), Expect = 6e-53, Method: Compositional matrix adjust.
Identities = 108/237 (45%), Positives = 147/237 (62%), Gaps = 3/237 (1%)
Query: 1 MVLEATMICIDNSEWMRNGDYSPSRLRAQADAVSLICGAKTQSNPENTVGILTMGGKGVR 60
MVLEAT++ IDNSE+ RNGD+ +R AQ D+V I AK SNPENTVG+++ G R
Sbjct: 1 MVLEATVLVIDNSEYSRNGDFPRTRFEAQIDSVEFIFQAKRNSNPENTVGLISGAGANPR 60
Query: 61 VLTTPTTDLGKILACMHELDIGGEMNIAAGIQVAQLALKHRQNKNQRQRIIVFAGSPVKY 120
VL+T T + GKILA +H+ I G++++A +Q+AQL LKHRQNK Q QRI+ F SP+
Sbjct: 61 VLSTFTAEFGKILAGLHDTQIEGKLHMATALQIAQLTLKHRQNKVQHQRIVAFVCSPISD 120
Query: 121 DRKVMEMIGKKLKKNSVAIDIVNFGEDDDGKPEKLEALLAAVNN--NDSSHLVHVPTGPN 178
R + + K LKKN+VA+DI+NFGE + E L+ +AAVNN ++SHL+ V GP
Sbjct: 121 SRDELIRLAKTLKKNNVAVDIINFGEIEQNT-ELLDEFIAAVNNPQEETSHLLTVTPGPR 179
Query: 179 ALSDVLISSPVFTXXXXXXXXXXXXXXXXXXXXXXXXXXXVDPNIDPELALALRVSM 235
L + + SSP+ VDP++DPELA+ALR+SM
Sbjct: 180 LLYENIASSPIILEEGSSGMGAFGGSGGDSDANGTFMDFGVDPSMDPELAMALRLSM 236
>pdb|2X5N|A Chain A, Crystal Structure Of The Sprpn10 Vwa Domain
Length = 192
Score = 192 bits (488), Expect = 3e-49, Method: Compositional matrix adjust.
Identities = 95/188 (50%), Positives = 125/188 (66%), Gaps = 2/188 (1%)
Query: 2 VLEATMICIDNSEWMRNGDYSPSRLRAQADAVSLICGAKTQSNPENTVGILTMGGKGVRV 61
VLEATMI IDNSEWM NGDY P+R AQ D V +I K NPEN G++T+G +V
Sbjct: 1 VLEATMILIDNSEWMINGDYIPTRFEAQKDTVHMIFNQKINDNPENMCGLMTIGDNSPQV 60
Query: 62 LTTPTTDLGKILACMHELDIGGEMNIAAGIQVAQLALKHRQNKNQRQRIIVFAGSPVKYD 121
L+T T D GK L+ MH+L + G GIQ+AQLALKHR+NK QRQRI+ F GSP+ D
Sbjct: 61 LSTLTRDYGKFLSAMHDLPVRGNAKFGDGIQIAQLALKHRENKIQRQRIVAFVGSPIVED 120
Query: 122 RKVMEMIGKKLKKNSVAIDIVNFGEDDDGKPEKLEALLAAVNNNDSSHLVHVPTGPNALS 181
K + + K++KKN+VAIDI++ GE + L+ + A N++DS HLV +P P LS
Sbjct: 121 EKNLIRLAKRMKKNNVAIDIIHIGELQN--ESALQHFIDAANSSDSCHLVSIPPSPQLLS 178
Query: 182 DVLISSPV 189
D++ SP+
Sbjct: 179 DLVNQSPI 186
>pdb|2KDE|A Chain A, Nmr Structure Of Major S5a (196-306):k48 Linked
Diubiquitin Species
pdb|2KDF|A Chain A, Nmr Structure Of Minor S5a (196-306):k48 Linked
Diubiquitin Species
Length = 111
Score = 34.7 bits (78), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 15/17 (88%), Positives = 16/17 (94%)
Query: 219 VDPNIDPELALALRVSM 235
VDP+ DPELALALRVSM
Sbjct: 13 VDPSADPELALALRVSM 29
>pdb|1YX4|A Chain A, Structure Of S5a Bound To Monoubiquitin Provides A Model
For Polyubiquitin Recognition
pdb|1YX5|A Chain A, Solution Structure Of S5a Uim-1UBIQUITIN COMPLEX
pdb|1YX6|A Chain A, Solution Structure Of S5a Uim-2UBIQUITIN COMPLEX
Length = 132
Score = 34.7 bits (78), Expect = 0.100, Method: Compositional matrix adjust.
Identities = 15/17 (88%), Positives = 16/17 (94%)
Query: 219 VDPNIDPELALALRVSM 235
VDP+ DPELALALRVSM
Sbjct: 34 VDPSADPELALALRVSM 50
>pdb|1OYZ|A Chain A, X-Ray Structure Of Yiba_ecoli Northeast Structural
Genomics Consortium Target Et31
Length = 280
Score = 31.6 bits (70), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 26/41 (63%)
Query: 102 QNKNQRQRIIVFAGSPVKYDRKVMEMIGKKLKKNSVAIDIV 142
Q+KN+ RI G + D++V+ ++ +LKKN+V DI+
Sbjct: 202 QDKNEEVRIEAIIGLSYRKDKRVLSVLCDELKKNTVYDDII 242
>pdb|1GO7|P Chain P, The Metzincin's Methionine: Prtc M226c-E189k Double Mutant
Length = 462
Score = 29.6 bits (65), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 37/77 (48%), Gaps = 6/77 (7%)
Query: 289 PMDEEKSLLERAFAMSMGTSVSDT-----SMADADTSKATDEDKELALALQMSMQDDTKD 343
PM ++ + ++R + +M T D+ S D D ATD K L ++ + DT D
Sbjct: 229 PMIDDIAAIQRLYGANMTTRTGDSVYGFNSNTDRDFYTATDSSKALIFSVWDAGGTDTFD 288
Query: 344 PSNQSDMSKV-LGDQSF 359
S S+ ++ L + SF
Sbjct: 289 FSGYSNNQRINLNEGSF 305
>pdb|3HB2|P Chain P, Prtc Methionine Mutants: M226i
Length = 462
Score = 29.6 bits (65), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 37/77 (48%), Gaps = 6/77 (7%)
Query: 289 PMDEEKSLLERAFAMSMGTSVSDT-----SMADADTSKATDEDKELALALQMSMQDDTKD 343
PM ++ + ++R + +M T D+ S D D ATD K L ++ + DT D
Sbjct: 229 PMIDDIAAIQRLYGANMTTRTGDSVYGFNSNTDRDFYTATDSSKALIFSVWDAGGTDTFD 288
Query: 344 PSNQSDMSKV-LGDQSF 359
S S+ ++ L + SF
Sbjct: 289 FSGYSNNQRINLNEGSF 305
>pdb|3HBU|P Chain P, Prtc Methionine Mutants: M226h Desy
Length = 462
Score = 29.6 bits (65), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 37/77 (48%), Gaps = 6/77 (7%)
Query: 289 PMDEEKSLLERAFAMSMGTSVSDT-----SMADADTSKATDEDKELALALQMSMQDDTKD 343
PM ++ + ++R + +M T D+ S D D ATD K L ++ + DT D
Sbjct: 229 PMIDDIAAIQRLYGANMTTRTGDSVYGFNSNTDRDFYTATDSSKALIFSVWDAGGTDTFD 288
Query: 344 PSNQSDMSKV-LGDQSF 359
S S+ ++ L + SF
Sbjct: 289 FSGYSNNQRINLNEGSF 305
>pdb|3HBV|P Chain P, Prtc Methionine Mutants: M226a In-House
pdb|3HDA|P Chain P, Prtc Methionine Mutants: M226a_desy
Length = 462
Score = 29.6 bits (65), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 37/77 (48%), Gaps = 6/77 (7%)
Query: 289 PMDEEKSLLERAFAMSMGTSVSDT-----SMADADTSKATDEDKELALALQMSMQDDTKD 343
PM ++ + ++R + +M T D+ S D D ATD K L ++ + DT D
Sbjct: 229 PMIDDIAAIQRLYGANMTTRTGDSVYGFNSNTDRDFYTATDSSKALIFSVWDAGGTDTFD 288
Query: 344 PSNQSDMSKV-LGDQSF 359
S S+ ++ L + SF
Sbjct: 289 FSGYSNNQRINLNEGSF 305
>pdb|1GO8|P Chain P, The Metzincin's Methionine: Prtc M226l Mutant
Length = 462
Score = 29.6 bits (65), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 37/77 (48%), Gaps = 6/77 (7%)
Query: 289 PMDEEKSLLERAFAMSMGTSVSDT-----SMADADTSKATDEDKELALALQMSMQDDTKD 343
PM ++ + ++R + +M T D+ S D D ATD K L ++ + DT D
Sbjct: 229 PMIDDIAAIQRLYGANMTTRTGDSVYGFNSNTDRDFYTATDSSKALIFSVWDAGGTDTFD 288
Query: 344 PSNQSDMSKV-LGDQSF 359
S S+ ++ L + SF
Sbjct: 289 FSGYSNNQRINLNEGSF 305
>pdb|1K7Q|A Chain A, Prtc From Erwinia Chrysanthemi: E189a Mutant
Length = 479
Score = 29.6 bits (65), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 37/77 (48%), Gaps = 6/77 (7%)
Query: 289 PMDEEKSLLERAFAMSMGTSVSDT-----SMADADTSKATDEDKELALALQMSMQDDTKD 343
PM ++ + ++R + +M T D+ S D D ATD K L ++ + DT D
Sbjct: 246 PMIDDIAAIQRLYGANMTTRTGDSVYGFNSNTDRDFYTATDSSKALIFSVWDAGGTDTFD 305
Query: 344 PSNQSDMSKV-LGDQSF 359
S S+ ++ L + SF
Sbjct: 306 FSGYSNNQRINLNEGSF 322
>pdb|1K7G|A Chain A, Prtc From Erwinia Chrysanthemi
Length = 479
Score = 29.3 bits (64), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 37/77 (48%), Gaps = 6/77 (7%)
Query: 289 PMDEEKSLLERAFAMSMGTSVSDT-----SMADADTSKATDEDKELALALQMSMQDDTKD 343
PM ++ + ++R + +M T D+ S D D ATD K L ++ + DT D
Sbjct: 246 PMIDDIAAIQRLYGANMTTRTGDSVYGFNSNTDRDFYTATDSSKALIFSVWDAGGTDTFD 305
Query: 344 PSNQSDMSKV-LGDQSF 359
S S+ ++ L + SF
Sbjct: 306 FSGYSNNQRINLNEGSF 322
>pdb|1K7I|A Chain A, Prtc From Erwinia Chrysanthemi: Y228f Mutant
Length = 479
Score = 29.3 bits (64), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 37/77 (48%), Gaps = 6/77 (7%)
Query: 289 PMDEEKSLLERAFAMSMGTSVSDT-----SMADADTSKATDEDKELALALQMSMQDDTKD 343
PM ++ + ++R + +M T D+ S D D ATD K L ++ + DT D
Sbjct: 246 PMIDDIAAIQRLYGANMTTRTGDSVYGFNSNTDRDFYTATDSSKALIFSVWDAGGTDTFD 305
Query: 344 PSNQSDMSKV-LGDQSF 359
S S+ ++ L + SF
Sbjct: 306 FSGYSNNQRINLNEGSF 322
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
0.312 0.129 0.355
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,032,095
Number of Sequences: 62578
Number of extensions: 316761
Number of successful extensions: 735
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 721
Number of HSP's gapped (non-prelim): 19
length of query: 392
length of database: 14,973,337
effective HSP length: 101
effective length of query: 291
effective length of database: 8,652,959
effective search space: 2518011069
effective search space used: 2518011069
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 52 (24.6 bits)