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= 037229
(577 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2Z7X|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 520
Score = 35.8 bits (81), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 32/110 (29%), Positives = 58/110 (52%), Gaps = 7/110 (6%)
Query: 274 MQEGTRRVSLKENKIGDLWETP--TSPQLLTLFLNINPLSMIGGDLFQFKPCLKVLNLSN 331
+ + T +++ +N I +LW + + +L L ++ N + + +F+F L+ L+LS+
Sbjct: 19 LSQKTTILNISQNYISELWTSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSH 78
Query: 332 SPCLEKLPSRISRLVSLQHLDLSSSGILELP--KELGFLGNLACLNLENT 379
+ L K+ + V+L+HLDLS + LP KE G + L L L T
Sbjct: 79 NK-LVKISCHPT--VNLKHLDLSFNAFDALPICKEFGNMSQLKFLGLSTT 125
>pdb|3ZYO|A Chain A, Crystal Structure Of The N-Terminal Leucine Rich Repeats
And Immunoglobulin Domain Of Netrin-G Ligand-3
Length = 411
Score = 34.3 bits (77), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 32/82 (39%), Positives = 43/82 (52%), Gaps = 4/82 (4%)
Query: 298 PQLLTLFLNINPLSMIGGDLFQFKPCLKVLNLSNSPCLEKLPS-RISRLVSLQHLDLSSS 356
P L TL L N L+ + F++ L+ L L N+P +E +PS +R+ SL+ LDL
Sbjct: 83 PSLNTLELFDNRLTTVPTQAFEYLSKLRELWLRNNP-IESIPSYAFNRVPSLRRLDLGEL 141
Query: 357 GILELPKELGFLG--NLACLNL 376
LE E F G NL LNL
Sbjct: 142 KRLEYISEAAFEGLVNLRYLNL 163
>pdb|3ZYN|A Chain A, Crystal Structure Of The N-Terminal Leucine Rich Repeats
Of Netrin-G Ligand-3
pdb|3ZYN|B Chain B, Crystal Structure Of The N-Terminal Leucine Rich Repeats
Of Netrin-G Ligand-3
Length = 321
Score = 33.9 bits (76), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 32/82 (39%), Positives = 43/82 (52%), Gaps = 4/82 (4%)
Query: 298 PQLLTLFLNINPLSMIGGDLFQFKPCLKVLNLSNSPCLEKLPS-RISRLVSLQHLDLSSS 356
P L TL L N L+ + F++ L+ L L N+P +E +PS +R+ SL+ LDL
Sbjct: 83 PSLNTLELFDNRLTTVPTQAFEYLSKLRELWLRNNP-IESIPSYAFNRVPSLRRLDLGEL 141
Query: 357 GILELPKELGFLG--NLACLNL 376
LE E F G NL LNL
Sbjct: 142 KRLEYISEAAFEGLVNLRYLNL 163
>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 = 32.3 bits (72), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 46/84 (54%), Gaps = 4/84 (4%)
Query: 310 LSMIGGDLFQ---FKPCLKVLNLSNSPCLEKLPSRISRLVSLQHLDLSSSGIL-ELPKEL 365
L+M+ G++ Q + L+ L L + ++PS +S +L + LS++ + E+PK +
Sbjct: 448 LNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWI 507
Query: 366 GFLGNLACLNLENTSSHGTITRQL 389
G L NLA L L N S G I +L
Sbjct: 508 GRLENLAILKLSNNSFSGNIPAEL 531
>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 = 32.3 bits (72), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 32/54 (59%), Gaps = 1/54 (1%)
Query: 337 KLPSRISRLVSLQHLDLSSSGIL-ELPKELGFLGNLACLNLENTSSHGTITRQL 389
++PS +S +L + LS++ + E+PK +G L NLA L L N S G I +L
Sbjct: 481 EIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAEL 534
>pdb|3LVT|A Chain A, The Crystal Structure Of A Protein In The Glycosyl
Hydrolase Family 38 From Enterococcus Faecalis To 2.55a
Length = 899
Score = 32.0 bits (71), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 18/28 (64%)
Query: 281 VSLKENKIGDLWETPTSPQLLTLFLNIN 308
V + N++ D WE PT+PQ F+N++
Sbjct: 695 VVTRPNQVSDTWENPTNPQHQQAFVNVH 722
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 28/89 (31%), Positives = 41/89 (46%), Gaps = 10/89 (11%)
Query: 300 LLTLFLNINPLSMIGGDLFQFKPCLKVLNLSNSPCLEKLPSRISR---------LVSLQH 350
L TL L NPL + + L+ L++ P L +LP ++ LV+LQ
Sbjct: 129 LETLTLARNPLRALPASIASLN-RLRELSIRACPELTELPEPLASTDASGEHQGLVNLQS 187
Query: 351 LDLSSSGILELPKELGFLGNLACLNLENT 379
L L +GI LP + L NL L + N+
Sbjct: 188 LRLEWTGIRSLPASIANLQNLKSLKIRNS 216
>pdb|4B8C|D Chain D, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|J Chain J, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|K Chain K, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|L Chain L, Nuclease Module Of The Yeast Ccr4-Not Complex
Length = 727
Score = 31.6 bits (70), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 31/54 (57%), Gaps = 2/54 (3%)
Query: 313 IGGDLFQFKPCLKVLNLSNSPCLEKLPSRISRLVSLQHLDLSSSGILELPKELG 366
I ++F++ ++ NS L +LP+ I L +L+ LDLS + + LP ELG
Sbjct: 239 ISANIFKYDFLTRLYLNGNS--LTELPAEIKNLSNLRVLDLSHNRLTSLPAELG 290
Score = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 40/78 (51%), Gaps = 2/78 (2%)
Query: 300 LLTLFLNINPLSMIGGDLFQFKPCLKVLNLSNSPCLEKLPSRISRLVSLQHLDLSSSGIL 359
L L+LN N L+ + ++ L+VL+LS++ L LP+ + L++ + +
Sbjct: 249 LTRLYLNGNSLTELPAEIKNLS-NLRVLDLSHN-RLTSLPAELGSCFQLKYFYFFDNMVT 306
Query: 360 ELPKELGFLGNLACLNLE 377
LP E G L NL L +E
Sbjct: 307 TLPWEFGNLCNLQFLGVE 324
>pdb|1H79|A Chain A, Structural Basis For Allosteric Substrate Specificity
Regulation In Class Iii Ribonucleotide Reductases: Nrdd
In Complex With Dttp
pdb|1H7A|A Chain A, Structural Basis For Allosteric Substrate Specificity
Regulation In Class Iii Ribonucleotide Reductases: Nrdd
In Complex With Datp
pdb|1H7B|A Chain A, Structural Basis For Allosteric Substrate Specificity
Regulation In Class Iii Ribonucleotide Reductases,
Native Nrdd
pdb|1H78|A Chain A, Structural Basis For Allosteric Substrate Specificity
Regulation In Class Iii Ribonucleotide Reductases: Nrdd
In Complex With Dctp.
pdb|1HK8|A Chain A, Structural Basis For Allosteric Substrate Specificity
Regulation In Class Iii Ribonucleotide Reductases: Nrdd
In Complex With Dgtp
Length = 605
Score = 31.6 bits (70), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 16/22 (72%)
Query: 536 KRIYPDVLPLKNLKGITVSSCP 557
KR+YPD++ KN K IT SS P
Sbjct: 263 KRMYPDIISAKNNKAITGSSVP 284
>pdb|1FIU|A Chain A, Tetrameric Restriction Endonuclease Ngomiv In Complex With
Cleaved Dna
pdb|1FIU|B Chain B, Tetrameric Restriction Endonuclease Ngomiv In Complex With
Cleaved Dna
pdb|1FIU|C Chain C, Tetrameric Restriction Endonuclease Ngomiv In Complex With
Cleaved Dna
pdb|1FIU|D Chain D, Tetrameric Restriction Endonuclease Ngomiv In Complex With
Cleaved Dna
pdb|4ABT|A Chain A, Crystal Structure Of Type Iif Restriction Endonuclease
Ngomiv With Cognate Uncleaved Dna
pdb|4ABT|B Chain B, Crystal Structure Of Type Iif Restriction Endonuclease
Ngomiv With Cognate Uncleaved Dna
Length = 286
Score = 31.6 bits (70), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 31/59 (52%), Gaps = 1/59 (1%)
Query: 122 PNPKRMSKVLFTTRFVEVYGHKEADEMFR-MECLRHEEAWKLFQMKVGKETMDDHSDIP 179
P P R+S + T ++ H E+ + ++ L +E+A LF + V + + D SD+P
Sbjct: 223 PTPSRISSIALGTGEIDCVYHFALYELEQILQSLNYEDALDLFYIMVNGKRLKDISDLP 281
>pdb|3ZYI|A Chain A, Netring2 In Complex With Ngl2
Length = 452
Score = 30.0 bits (66), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 32/81 (39%), Positives = 42/81 (51%), Gaps = 4/81 (4%)
Query: 299 QLLTLFLNINPLSMIGGDLFQFKPCLKVLNLSNSPCLEKLPS-RISRLVSLQHLDLSSSG 357
L TL L N L++I F++ L+ L L N+P +E +PS +R+ SL LDL
Sbjct: 124 SLNTLELFDNWLTVIPSGAFEYLSKLRELWLRNNP-IESIPSYAFNRVPSLMRLDLGELK 182
Query: 358 ILELPKELGFLG--NLACLNL 376
LE E F G NL LNL
Sbjct: 183 KLEYISEGAFEGLFNLKYLNL 203
>pdb|2V9S|A Chain A, Second Lrr Domain Of Human Slit2
pdb|2V9S|B Chain B, Second Lrr Domain Of Human Slit2
pdb|2V9S|C Chain C, Second Lrr Domain Of Human Slit2
pdb|2V9S|D Chain D, Second Lrr Domain Of Human Slit2
Length = 220
Score = 28.9 bits (63), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 38/77 (49%), Gaps = 2/77 (2%)
Query: 291 LWETPTS-PQLLT-LFLNINPLSMIGGDLFQFKPCLKVLNLSNSPCLEKLPSRISRLVSL 348
L E PT+ P+ +T + L N + +I F L+ ++LSN+ E P L SL
Sbjct: 23 LTEIPTNLPETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSL 82
Query: 349 QHLDLSSSGILELPKEL 365
L L + I ELPK L
Sbjct: 83 NSLVLYGNKITELPKSL 99
>pdb|2V9T|B Chain B, Complex Between The Second Lrr Domain Of Slit2 And The
First Ig Domain From Robo1
Length = 220
Score = 28.9 bits (63), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 38/77 (49%), Gaps = 2/77 (2%)
Query: 291 LWETPTS-PQLLT-LFLNINPLSMIGGDLFQFKPCLKVLNLSNSPCLEKLPSRISRLVSL 348
L E PT+ P+ +T + L N + +I F L+ ++LSN+ E P L SL
Sbjct: 23 LTEIPTNLPETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSL 82
Query: 349 QHLDLSSSGILELPKEL 365
L L + I ELPK L
Sbjct: 83 NSLVLYGNKITELPKSL 99
>pdb|3FXI|A Chain A, Crystal Structure Of The Human Tlr4-Human Md-2-E.Coli Lps
Ra Complex
pdb|3FXI|B Chain B, Crystal Structure Of The Human Tlr4-Human Md-2-E.Coli Lps
Ra Complex
Length = 605
Score = 28.5 bits (62), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 16/22 (72%)
Query: 337 KLPSRISRLVSLQHLDLSSSGI 358
KLP S L +L+HLDLSS+ I
Sbjct: 140 KLPEYFSNLTNLEHLDLSSNKI 161
>pdb|4G8A|A Chain A, Crystal Structure Of Human Tlr4 Polymorphic Variant D299g
And T399i In Complex With Md-2 And Lps
pdb|4G8A|B Chain B, Crystal Structure Of Human Tlr4 Polymorphic Variant D299g
And T399i In Complex With Md-2 And Lps
Length = 635
Score = 28.5 bits (62), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 16/22 (72%)
Query: 337 KLPSRISRLVSLQHLDLSSSGI 358
KLP S L +L+HLDLSS+ I
Sbjct: 164 KLPEYFSNLTNLEHLDLSSNKI 185
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
0.322 0.138 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,023,776
Number of Sequences: 62578
Number of extensions: 711731
Number of successful extensions: 1727
Number of sequences better than 100.0: 37
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 24
Number of HSP's that attempted gapping in prelim test: 1668
Number of HSP's gapped (non-prelim): 74
length of query: 577
length of database: 14,973,337
effective HSP length: 104
effective length of query: 473
effective length of database: 8,465,225
effective search space: 4004051425
effective search space used: 4004051425
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (25.4 bits)