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= psy8596
(237 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3IPK|A Chain A, Crystal Structure Of A3vp1 Of AgiII OF STREPTOCOCCUS
MUTANS
pdb|3IPK|B Chain B, Crystal Structure Of A3vp1 Of AgiII OF STREPTOCOCCUS
MUTANS
pdb|3IOX|A Chain A, Crystal Structure Of A3vp1 Of AgiII OF STREPTOCOCCUS
MUTANS
Length = 497
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 47 HERDIAEYKLKLHAYESEVEELELGKSKAELDKAANEVGR 86
+++D+A+Y +KL AYE E+ + + AEL+K NE G
Sbjct: 78 YQKDLADYPVKLKAYED--EQTSIKAALAELEKHKNEDGN 115
>pdb|2V66|B Chain B, Crystal Structure Of The Coiled-Coil Domain Of Ndel1 (A.A.
58 To 169)c
pdb|2V66|C Chain C, Crystal Structure Of The Coiled-Coil Domain Of Ndel1 (A.A.
58 To 169)c
pdb|2V66|D Chain D, Crystal Structure Of The Coiled-Coil Domain Of Ndel1 (A.A.
58 To 169)c
pdb|2V66|E Chain E, Crystal Structure Of The Coiled-Coil Domain Of Ndel1 (A.A.
58 To 169)c
Length = 111
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 48/85 (56%), Gaps = 15/85 (17%)
Query: 152 RVVQADNERVRSEEKTMQEKVEKSQGEVYRLKAKLENTQGEMESMKEEYERTQGTLSRLL 211
R +QADN+R++ E + ++EK+E + Y+ + LE+ + ++KE+
Sbjct: 6 RDLQADNQRLKYEVEALKEKLEHQYAQSYKQVSVLEDDLSQTRAIKEQLH---------- 55
Query: 212 SERDKAVLEMDKSKEELERSQ-ATL 235
K V E++++ ++LER++ AT+
Sbjct: 56 ----KYVRELEQANDDLERAKRATI 76
>pdb|2V71|A Chain A, Coiled-Coil Region Of Nudel
pdb|2V71|B Chain B, Coiled-Coil Region Of Nudel
Length = 189
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 26/95 (27%), Positives = 53/95 (55%), Gaps = 15/95 (15%)
Query: 142 ADLRRAQAELRVVQADNERVRSEEKTMQEKVEKSQGEVYRLKAKLENTQGEMESMKEEYE 201
A L +A+ R +QADN+R++ E + ++EK+E + Y+ + LE+ + ++KE+
Sbjct: 49 AQLVQAEQRNRDLQADNQRLKYEVEALKEKLEHQYAQSYKQVSVLEDDLSQTRAIKEQLH 108
Query: 202 RTQGTLSRLLSERDKAVLEMDKSKEELERSQ-ATL 235
K V E++++ ++LER++ AT+
Sbjct: 109 --------------KYVRELEQANDDLERAKRATI 129
>pdb|1JMM|A Chain A, Crystal Structure Of The V-Region Of Streptococcus
Mutans Antigen III
Length = 377
Score = 28.1 bits (61), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 25/39 (64%), Gaps = 2/39 (5%)
Query: 48 ERDIAEYKLKLHAYESEVEELELGKSKAELDKAANEVGR 86
++D+A+Y +KL AYE E+ + + AEL+K NE G
Sbjct: 1 QKDLADYPVKLKAYED--EQASIKAALAELEKHKNEDGN 37
>pdb|2CRF|A Chain A, Solution Structure Of The Ran_bp1 Domain Of Ran-Binding
Protein-3
Length = 150
Score = 27.3 bits (59), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 35/63 (55%), Gaps = 3/63 (4%)
Query: 165 EKTMQEKVEKSQGEVYRLKAKLENTQGEMESMKEEYERTQGTLSRLLSERDKAVLEMDKS 224
+KT Q VE+ +G + RL G ++S RTQG+L +L+ + A +++DK+
Sbjct: 40 DKTSQSWVERGRG-LLRLNDMASTDDGTLQS--RLVMRTQGSLRLILNTKLWAQMQIDKA 96
Query: 225 KEE 227
E+
Sbjct: 97 SEK 99
>pdb|3KZ4|A Chain A, Crystal Structure Of The Rotavirus Double Layered Particle
pdb|3KZ4|B Chain B, Crystal Structure Of The Rotavirus Double Layered Particle
pdb|4F5X|A Chain A, Location Of The Dsrna-dependent Polymerase, Vp1, In
Rotavirus Particles
pdb|4F5X|B Chain B, Location Of The Dsrna-dependent Polymerase, Vp1, In
Rotavirus Particles
Length = 880
Score = 27.3 bits (59), Expect = 6.6, Method: Composition-based stats.
Identities = 31/108 (28%), Positives = 50/108 (46%), Gaps = 6/108 (5%)
Query: 131 DRLQEKYDKTCADLRRAQAELRVVQADNERV--RSEEKTMQEKVEKSQGEVYRLKAKLEN 188
DR+QEK D+ R Q +V+ E V EE + ++V+KS E K LE
Sbjct: 18 DRMQEKDDEKQDQNNRMQLSDKVLSKKEEVVTDSQEEIKIADEVKKSTKE--ESKQLLEV 75
Query: 189 TQGEMESMKE-EYERTQGTLSRLLSERDKAVLEMDKSKEELERSQATL 235
+ + E KE +YE Q T+ ++ + +++ K E + Q L
Sbjct: 76 LKTKEEHQKEIQYEILQKTIPT-FEPKESILKKLEDIKPEQAKKQTKL 122
>pdb|2Y8F|A Chain A, Structure Of The Ran-Binding Domain From Human Ranbp3
(Wild Type)
pdb|2Y8F|B Chain B, Structure Of The Ran-Binding Domain From Human Ranbp3
(Wild Type)
pdb|2Y8F|C Chain C, Structure Of The Ran-Binding Domain From Human Ranbp3
(Wild Type)
pdb|2Y8F|D Chain D, Structure Of The Ran-Binding Domain From Human Ranbp3
(Wild Type)
Length = 138
Score = 27.3 bits (59), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 37/69 (53%), Gaps = 3/69 (4%)
Query: 165 EKTMQEKVEKSQGEVYRLKAKLENTQGEMESMKEEYERTQGTLSRLLSERDKAVLEMDKS 224
+KT Q VE+ +G + RL G ++S RTQG+L +L+ + A +++DK+
Sbjct: 28 DKTSQSWVERGRG-LLRLNDMASTDDGTLQS--RLVMRTQGSLRLILNTKLWAQMQIDKA 84
Query: 225 KEELERSQA 233
E+ R A
Sbjct: 85 SEKSIRITA 93
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
0.306 0.122 0.316
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,906,677
Number of Sequences: 62578
Number of extensions: 151504
Number of successful extensions: 531
Number of sequences better than 100.0: 87
Number of HSP's better than 100.0 without gapping: 54
Number of HSP's successfully gapped in prelim test: 33
Number of HSP's that attempted gapping in prelim test: 413
Number of HSP's gapped (non-prelim): 140
length of query: 237
length of database: 14,973,337
effective HSP length: 96
effective length of query: 141
effective length of database: 8,965,849
effective search space: 1264184709
effective search space used: 1264184709
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (22.0 bits)
S2: 50 (23.9 bits)