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= 038390
(228 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3JRN|A Chain A, Crystal Structure Of Tir Domain From Arabidopsis
Thaliana
Length = 176
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/43 (46%), Positives = 28/43 (65%)
Query: 1 GISISPAPSKVIEESRISVIVFLRNCASSTWCLDELVKIVEWK 43
G SP IE SR +V+V N A+S+WCLDELV I++++
Sbjct: 49 GQRFSPELKSPIEVSRFAVVVVSENYAASSWCLDELVTIMDFE 91
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 37.7 bits (86), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 37/69 (53%), Gaps = 1/69 (1%)
Query: 120 KTLILSGCSKLKKFPEIVGNMKFLRQLLL-DGTDIKXXXXXXXXXXXXXQLNLKGCKNIE 178
+ L L GC+ L+ +P I G L++L+L D +++ +L+L+GC N+
Sbjct: 232 EELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLS 291
Query: 179 CLPNFISAL 187
LP+ I+ L
Sbjct: 292 RLPSLIAQL 300
>pdb|3OZI|A Chain A, Crystal Structure Of The Tir Domain From The Flax Disease
Resistance Protein L6
pdb|3OZI|B Chain B, Crystal Structure Of The Tir Domain From The Flax Disease
Resistance Protein L6
Length = 204
Score = 33.9 bits (76), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 35/84 (41%), Gaps = 15/84 (17%)
Query: 1 GISISPAPSKVIEESRISVIVFLRNCASSTWCLDELVKIVEWK---------------NT 45
G I P + I++S+I V + A S WCL EL +IV + +
Sbjct: 76 GKEIGPNLLRAIDQSKIYVPIISSGYADSKWCLMELAEIVRRQEEDPRRIILPIFYMVDP 135
Query: 46 SLVRKHIGSFQEAIVNHEEVLKGE 69
S VR G +++A H G+
Sbjct: 136 SDVRHQTGCYKKAFRKHANKFDGQ 159
>pdb|1I5I|A Chain A, The C18s Mutant Of Bovine (Gamma-B)-Crystallin
Length = 174
Score = 29.6 bits (65), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 25/54 (46%)
Query: 92 YDFSGLRVHSRTSSHPFQNLRLIFMKSPKTLILSGCSKLKKFPEIVGNMKFLRQ 145
Y+ G + H SS NL+ F + + SGC L + P G+ FLR+
Sbjct: 6 YEDRGFQGHCYESSSDCPNLQPYFSRCNSIRVDSGCWMLYERPNYQGHQYFLRR 59
>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 = 28.5 bits (62), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 29/127 (22%), Positives = 55/127 (43%), Gaps = 9/127 (7%)
Query: 30 TWCLDELVKI--VEWKNTSLVRKHIGSFQEAIVNHEEVLKGEYRKGAKMERRFARGTEVV 87
T CL++L + ++ ++ + + Q + H + L Y + +E + + +
Sbjct: 342 TRCLEKLENLQKLDLSHSDIEASDCCNLQLKNLRHLQYLNLSYNEPLGLEDQAFKECPQL 401
Query: 88 ECMVYDFSGLRVHSRTSSHPFQNLRLIFMKSPKTLILSGCSKLKKFPEIVGNMKFLRQLL 147
E + F+ L V + S PFQNL L+ + L LS C ++ ++ LR L
Sbjct: 402 ELLDVAFTHLHVKAPHS--PFQNLHLL-----RVLNLSHCLLDTSNQHLLAGLQDLRHLN 454
Query: 148 LDGTDIK 154
L G +
Sbjct: 455 LQGNSFQ 461
>pdb|1AMM|A Chain A, 1.2 Angstrom Structure Of Gamma-B Crystallin At 150k
pdb|1GCS|A Chain A, Structure Of The Bovine Gamma-B Crystallin At 150k
pdb|4GCR|A Chain A, Structure Of The Bovine Eye Lens Protein Gamma-B
(Gamma-Ii)- Crystallin At 1.47 Angstroms
Length = 174
Score = 28.1 bits (61), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 24/54 (44%)
Query: 92 YDFSGLRVHSRTSSHPFQNLRLIFMKSPKTLILSGCSKLKKFPEIVGNMKFLRQ 145
Y+ G + H S NL+ F + + SGC L + P G+ FLR+
Sbjct: 6 YEDRGFQGHCYECSSDCPNLQPYFSRCNSIRVDSGCWMLYERPNYQGHQYFLRR 59
>pdb|2WAQ|B Chain B, The Complete Structure Of The Archaeal 13-Subunit Dna-
Directed Rna Polymerase
pdb|2WB1|B Chain B, The Complete Structure Of The Archaeal 13-Subunit Dna-
Directed Rna Polymerase
pdb|2WB1|R Chain R, The Complete Structure Of The Archaeal 13-Subunit Dna-
Directed Rna Polymerase
pdb|2Y0S|B Chain B, Crystal Structure Of Sulfolobus Shibatae Rna Polymerase
In P21 Space Group
pdb|2Y0S|R Chain R, Crystal Structure Of Sulfolobus Shibatae Rna Polymerase
In P21 Space Group
pdb|4AYB|B Chain B, Rnap At 3.2ang
pdb|4B1O|B Chain B, Archaeal Rnap-Dna Binary Complex At 4.32ang
pdb|4B1P|R Chain R, Archaeal Rnap-Dna Binary Complex At 4.32ang
Length = 1131
Score = 27.7 bits (60), Expect = 6.2, Method: Composition-based stats.
Identities = 14/39 (35%), Positives = 24/39 (61%), Gaps = 2/39 (5%)
Query: 25 NCASSTWCLDELVKIVE--WKNTSLVRKHIGSFQEAIVN 61
N SS +DE K++E +K+ LVR+H+ S+ + + N
Sbjct: 2 NELSSNLSIDERWKVIEAYFKSKGLVRQHLDSYNDFVRN 40
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 0.140 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,716,681
Number of Sequences: 62578
Number of extensions: 200470
Number of successful extensions: 850
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 845
Number of HSP's gapped (non-prelim): 9
length of query: 228
length of database: 14,973,337
effective HSP length: 95
effective length of query: 133
effective length of database: 9,028,427
effective search space: 1200780791
effective search space used: 1200780791
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 50 (23.9 bits)