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= 040556
(128 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 42.0 bits (97), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 38/132 (28%), Positives = 63/132 (47%), Gaps = 11/132 (8%)
Query: 4 LQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISA---------LKFLSTL 54
L+ L L ++ LP SI L+ + +L ++ C ++ L +++ L L +L
Sbjct: 129 LETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSL 188
Query: 55 NLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVP 114
L + T IR L S+ L L L +++ LS+L I+ L L+ L+L C+ L N P
Sbjct: 189 RL-EWTGIRSLPASIANLQNLKSLKIRN-SPLSALGPAIHHLPKLEELDLRGCTALRNYP 246
Query: 115 ENLGKVESLEEL 126
G L+ L
Sbjct: 247 PIFGGRAPLKRL 258
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 38/111 (34%), Positives = 51/111 (45%), Gaps = 1/111 (0%)
Query: 4 LQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIR 63
LQ L L+ T I+ LP SI L + L ++ +S L I L L L+L TA+R
Sbjct: 185 LQSLRLEWTGIRSLPASIANLQNLKSLKIRNSP-LSALGPAIHHLPKLEELDLRGCTALR 243
Query: 64 ELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVP 114
L L LKD L +LP I+ L L+ L+L C L +P
Sbjct: 244 NYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLP 294
Score = 33.5 bits (75), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 28/100 (28%), Positives = 44/100 (44%), Gaps = 7/100 (7%)
Query: 25 SGIVQLDLKGCKNISCLSNFISALKFLSTLNLS--DGTAIRELSLSVELLTGLVVLNLKD 82
G V L+L+ L F LS L D + EL + + GL L L
Sbjct: 81 PGRVALELRSVP----LPQFPDQAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTLAR 136
Query: 83 WQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVES 122
L +LP++I L L+ L++ +C +L +PE L ++
Sbjct: 137 -NPLRALPASIASLNRLRELSIRACPELTELPEPLASTDA 175
Score = 32.0 bits (71), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 28/42 (66%)
Query: 7 LLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISAL 48
+L D +++ LPL I L+ + +LDL+GC N+S L + I+ L
Sbjct: 259 ILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQL 300
>pdb|4AY9|X Chain X, Structure Of Follicle-Stimulating Hormone In Complex With
The Entire Ectodomain Of Its Receptor
pdb|4AY9|Y Chain Y, Structure Of Follicle-Stimulating Hormone In Complex With
The Entire Ectodomain Of Its Receptor
pdb|4AY9|Z Chain Z, Structure Of Follicle-Stimulating Hormone In Complex With
The Entire Ectodomain Of Its Receptor
Length = 350
Score = 29.6 bits (65), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 40/126 (31%), Positives = 61/126 (48%), Gaps = 8/126 (6%)
Query: 4 LQELLLDGTDIKGLPLSIVLLS-GIVQLDLKGCKNISCLS-NFISALKFLSTLNLSDGTA 61
LQ LL+ T IK LP + S V LD++ NI + N L F S + +
Sbjct: 106 LQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNG 165
Query: 62 IRELSLSVELLTGLVVLNLKDWQYLSSLPSTI-NGLKSLKILNLSSCSKLENVP----EN 116
I+E+ S T L LNL D L LP+ + +G IL++S +++ ++P EN
Sbjct: 166 IQEIHNSAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISR-TRIHSLPSYGLEN 224
Query: 117 LGKVES 122
L K+ +
Sbjct: 225 LKKLRA 230
>pdb|2P1M|B Chain B, Tir1-ask1 Complex Structure
pdb|2P1N|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiqutin Ligase
pdb|2P1N|E Chain E, Mechanism Of Auxin Perception By The Tir1 Ubiqutin Ligase
pdb|2P1O|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|2P1P|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|2P1Q|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|3C6N|B Chain B, Small Molecule Agonists And Antagonists Of F-Box Protein-
Substrate Interactions In Auxin Perception And Signaling
pdb|3C6O|B Chain B, Small Molecule Agonists And Antagonists Of F-Box
Protein-Substrate Interactions In Auxin Perception And
Signaling
pdb|3C6P|B Chain B, Small Molecule Agonists And Antagonists Of F-Box Protein-
Substrate Interactions In Auxin Perception And Signaling
Length = 594
Score = 28.5 bits (62), Expect = 1.1, Method: Composition-based stats.
Identities = 27/86 (31%), Positives = 37/86 (43%), Gaps = 15/86 (17%)
Query: 32 LKGCKNISCLSNFISAL-----------KFLSTLNLSDGTA----IRELSLSVELLTGLV 76
L GCK + CLS F A+ L+TLNLS T + +L L L
Sbjct: 261 LSGCKELRCLSGFWDAVPAYLPAVYSVCSRLTTLNLSYATVQSYDLVKLLCQCPKLQRLW 320
Query: 77 VLNLKDWQYLSSLPSTINGLKSLKIL 102
VL+ + L L ST L+ L++
Sbjct: 321 VLDYIEDAGLEVLASTCKDLRELRVF 346
>pdb|3RIZ|A Chain A, Crystal Structure Of The Plant Steroid Receptor Bri1
Ectodomain
pdb|3RJ0|A Chain A, Plant Steroid Receptor Bri1 Ectodomain In Complex With
Brassinolide
Length = 772
Score = 28.1 bits (61), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 28/54 (51%)
Query: 75 LVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI 128
L +LNL S+P + L+ L IL+LSS +P+ + + L E+D+
Sbjct: 655 LFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDL 708
Score = 28.1 bits (61), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 26/73 (35%), Positives = 35/73 (47%), Gaps = 13/73 (17%)
Query: 56 LSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPE 115
LS+ T + +SLS LTG +P I L++L IL LS+ S N+P
Sbjct: 483 LSNCTNLNWISLSNNRLTG-------------EIPKWIGRLENLAILKLSNNSFSGNIPA 529
Query: 116 NLGKVESLEELDI 128
LG SL LD+
Sbjct: 530 ELGDCRSLIWLDL 542
>pdb|3RGX|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
pdb|3RGZ|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
Length = 768
Score = 27.7 bits (60), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 28/54 (51%)
Query: 75 LVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI 128
L +LNL S+P + L+ L IL+LSS +P+ + + L E+D+
Sbjct: 658 LFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDL 711
Score = 27.7 bits (60), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 26/73 (35%), Positives = 35/73 (47%), Gaps = 13/73 (17%)
Query: 56 LSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPE 115
LS+ T + +SLS LTG +P I L++L IL LS+ S N+P
Sbjct: 486 LSNCTNLNWISLSNNRLTG-------------EIPKWIGRLENLAILKLSNNSFSGNIPA 532
Query: 116 NLGKVESLEELDI 128
LG SL LD+
Sbjct: 533 ELGDCRSLIWLDL 545
>pdb|2C7T|A Chain A, Crystal Structure Of The Plp-Bound Form Of Btrr, A Dual
Functional Aminotransferase Involved In Butirosin
Biosynthesis.
pdb|2C81|A Chain A, Crystal Structures Of The Plp- And Pmp-Bound Forms Of
Btrr, A Dual Functional Aminotransferase Involved In
Butirosin Biosynthesis
Length = 418
Score = 27.7 bits (60), Expect = 1.8, Method: Composition-based stats.
Identities = 26/80 (32%), Positives = 35/80 (43%), Gaps = 18/80 (22%)
Query: 23 LLSGIVQLDLKGCKNIS--CLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL 80
L+ G +QL KG S CLS F SA+ L D AIRE
Sbjct: 230 LMHGDMQLVKKGDIQGSNYCLSEFQSAILLDQLQELDDKNAIRE---------------- 273
Query: 81 KDWQYLSSLPSTINGLKSLK 100
K+ +L+ S I+G+K +K
Sbjct: 274 KNAMFLNDALSKIDGIKVMK 293
>pdb|3V47|A Chain A, Crystal Structure Of The N-Tetminal Fragment Of Zebrafish
Tlr5 In Complex With Salmonella Flagellin
pdb|3V47|B Chain B, Crystal Structure Of The N-Tetminal Fragment Of Zebrafish
Tlr5 In Complex With Salmonella Flagellin
Length = 455
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 31/61 (50%), Gaps = 2/61 (3%)
Query: 48 LKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSC 107
L+FL + G IR + L+ L++L L Q+L NGL +L++L L+ C
Sbjct: 56 LQFLKVEQQTPGLVIRNNTFRG--LSSLIILKLDYNQFLQLETGAFNGLANLEVLTLTQC 113
Query: 108 S 108
+
Sbjct: 114 N 114
>pdb|3V44|A Chain A, Crystal Structure Of The N-Terminal Fragment Of Zebrafish
Tlr5
Length = 407
Score = 27.7 bits (60), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 31/61 (50%), Gaps = 2/61 (3%)
Query: 48 LKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSC 107
L+FL + G IR + L+ L++L L Q+L NGL +L++L L+ C
Sbjct: 56 LQFLKVEQQTPGLVIRNNTF--RGLSSLIILKLDYNQFLQLETGAFNGLANLEVLTLTQC 113
Query: 108 S 108
+
Sbjct: 114 N 114
>pdb|1W8A|A Chain A, Third Lrr Domain Of Drosophila Slit
Length = 192
Score = 25.8 bits (55), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 39/84 (46%), Gaps = 2/84 (2%)
Query: 24 LSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVEL-LTGLVVLNLKD 82
L +V+L+LK + N + L L + I+E+S + L L L LNL D
Sbjct: 53 LPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGE-NKIKEISNKMFLGLHQLKTLNLYD 111
Query: 83 WQYLSSLPSTINGLKSLKILNLSS 106
Q +P + L SL LNL+S
Sbjct: 112 NQISCVMPGSFEHLNSLTSLNLAS 135
>pdb|2Z7X|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 520
Score = 25.8 bits (55), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 26/30 (86%), Gaps = 1/30 (3%)
Query: 99 LKILNLSSCSKLENVPENLGKVESLEELDI 128
+K+L+L S +K++++P+ + K+E+L+EL++
Sbjct: 423 IKVLDLHS-NKIKSIPKQVVKLEALQELNV 451
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
0.317 0.137 0.372
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,324,535
Number of Sequences: 62578
Number of extensions: 108146
Number of successful extensions: 290
Number of sequences better than 100.0: 30
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 21
Number of HSP's that attempted gapping in prelim test: 261
Number of HSP's gapped (non-prelim): 45
length of query: 128
length of database: 14,973,337
effective HSP length: 87
effective length of query: 41
effective length of database: 9,529,051
effective search space: 390691091
effective search space used: 390691091
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 45 (21.9 bits)