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= 038150
(488 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 = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 42/119 (35%), Positives = 59/119 (49%), Gaps = 13/119 (10%)
Query: 158 VRHLMLIFSKAASLPISTLRVKRMRTLLINDHSL--LNAAI-----LEEL-FRELTSLRA 209
++ L L ++ SLP S ++ +++L I + L L AI LEEL R T+LR
Sbjct: 185 LQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRN 244
Query: 210 LD--FGGSYHSTRLLTPEVPRNIEKLVLPETLCELYNLEKLDISDCFNLKELPEGIGKL 266
FGG RL+ + N+ L LP + L LEKLD+ C NL LP I +L
Sbjct: 245 YPPIFGGRAPLKRLILKDC-SNL--LTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQL 300
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 33.5 bits (75), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 41/88 (46%), Gaps = 14/88 (15%)
Query: 200 LFRELTSLRALDFGGSYHSTRLLTPEVPRNIEKLVLPETLCELYNLEKLDISDCFNLKEL 259
+F L+SL L G+ + ++ LP+ EL NL LD+S C L++L
Sbjct: 440 IFNGLSSLEVLKMAGN-------------SFQENFLPDIFTELRNLTFLDLSQC-QLEQL 485
Query: 260 PEGIGKLINVKHLLNRGTNSLRYMPVGI 287
++ +LN +N L+ +P GI
Sbjct: 486 SPTAFNSLSSLQVLNMASNQLKSVPDGI 513
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 26/67 (38%), Positives = 32/67 (47%), Gaps = 8/67 (11%)
Query: 391 LEIEYYRGNTV----FPSWMTSLTNLKSLDLSSCENCEQLPPLGKLQSLENLHIWRMES- 445
LE+ GN+ P T L NL LDLS C+ EQL P SL +L + M S
Sbjct: 447 LEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQ-LEQLSPTA-FNSLSSLQVLNMASN 504
Query: 446 -VKRVGD 451
+K V D
Sbjct: 505 QLKSVPD 511
>pdb|3J21|Q Chain Q, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (50s Ribosomal Proteins)
Length = 150
Score = 30.0 bits (66), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 43/90 (47%), Gaps = 7/90 (7%)
Query: 51 DIEDVLDEWITGRRKLQIEGGIGENALIAPHKKKKVRFCFRASCLGFKTEEFGFKQVFLR 110
DI+ ++ E + +K I+G A I +KKK R S G KT G K+++++
Sbjct: 40 DIKRLIKEGVI--KKKPIKGQSRYRAKIRHEQKKKGRHRGPGSRKGKKTARMGKKELWIK 97
Query: 111 HDIANKIKEMNEELHDIATQKDIQNECFSM 140
I+ + +EL + QK I + + M
Sbjct: 98 T-----IRALRKELRKLKAQKKIDRKTYRM 122
>pdb|3H5O|A Chain A, The Crystal Structure Of Transcription Regulator Gntr From
Chromobacterium Violaceum
pdb|3H5O|B Chain B, The Crystal Structure Of Transcription Regulator Gntr From
Chromobacterium Violaceum
Length = 339
Score = 29.3 bits (64), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 33/76 (43%), Gaps = 2/76 (2%)
Query: 125 HDIATQKDIQNECFSMAINGSEEPNATNALDEKVRHLMLIFSKAASLPISTLRVKRMRTL 184
HD+A + S +N ++ + L EKV + + S STL + RT+
Sbjct: 8 HDVAKAAGVSAITVSRVLNQPQQ--VSEQLREKVXQAVDALAYVPSRSASTLASAKSRTV 65
Query: 185 LINDHSLLNAAILEEL 200
L+ SL N LE L
Sbjct: 66 LVLIPSLANTVFLETL 81
>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 = 29.3 bits (64), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 22/57 (38%), Positives = 27/57 (47%), Gaps = 6/57 (10%)
Query: 391 LEIEYYRGNTV----FPSWMTSLTNLKSLDLSSCENCEQLPPLGKLQSLENLHIWRM 443
LE+ GN+ P T L NL LDLS C+ EQL P SL +L + M
Sbjct: 447 LEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQ-LEQLSPTA-FNSLSSLQVLNM 501
>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 = 29.3 bits (64), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 22/57 (38%), Positives = 27/57 (47%), Gaps = 6/57 (10%)
Query: 391 LEIEYYRGNTV----FPSWMTSLTNLKSLDLSSCENCEQLPPLGKLQSLENLHIWRM 443
LE+ GN+ P T L NL LDLS C+ EQL P SL +L + M
Sbjct: 471 LEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQ-LEQLSPTA-FNSLSSLQVLNM 525
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 28.9 bits (63), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 31/94 (32%), Positives = 44/94 (46%), Gaps = 18/94 (19%)
Query: 194 AAILEELFRELTSLRALDFGGSYHSTRLLTPEVPRNIEKLVLPETLCE-LYNLEKLDISD 252
A+ +F LT L LD G T LT VLP + + L +L++L +
Sbjct: 77 GALPVGVFDSLTQLTVLDLG-----TNQLT----------VLPSAVFDRLVHLKELFMC- 120
Query: 253 CFNLKELPEGIGKLINVKHLLNRGTNSLRYMPVG 286
C L ELP GI +L ++ HL N L+ +P G
Sbjct: 121 CNKLTELPRGIERLTHLTHLA-LDQNQLKSIPHG 153
>pdb|3U95|A Chain A, Crystal Structure Of A Putative Alpha-Glucosidase From
Thermotoga Neapolitana
pdb|3U95|B Chain B, Crystal Structure Of A Putative Alpha-Glucosidase From
Thermotoga Neapolitana
pdb|3U95|C Chain C, Crystal Structure Of A Putative Alpha-Glucosidase From
Thermotoga Neapolitana
pdb|3U95|D Chain D, Crystal Structure Of A Putative Alpha-Glucosidase From
Thermotoga Neapolitana
pdb|3U95|E Chain E, Crystal Structure Of A Putative Alpha-Glucosidase From
Thermotoga Neapolitana
pdb|3U95|F Chain F, Crystal Structure Of A Putative Alpha-Glucosidase From
Thermotoga Neapolitana
Length = 477
Score = 28.9 bits (63), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 18/36 (50%), Gaps = 2/36 (5%)
Query: 27 DAEEKQVKDKAVRH--WLGRLKYASYDIEDVLDEWI 60
D EE + V H WL R +Y D +LDEWI
Sbjct: 197 DPEEVDWQVAGVNHGIWLNRFRYRGKDAYPLLDEWI 232
>pdb|2Z66|A Chain A, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z66|B Chain B, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z66|C Chain C, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z66|D Chain D, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 306
Score = 28.9 bits (63), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 27/60 (45%), Gaps = 6/60 (10%)
Query: 389 KELEIEYYRGNTV----FPSWMTSLTNLKSLDLSSCENCEQLPPLGKLQSLENLHIWRME 444
LE+ GN+ P T L NL LDLS C+ EQL P SL +L + M
Sbjct: 150 SSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQ-LEQLSPTA-FNSLSSLQVLNMS 207
>pdb|1VJT|A Chain A, Crystal Structure Of Alpha-Glucosidase (Tm0752) From
Thermotoga Maritima At 2.50 A Resolution
Length = 483
Score = 28.5 bits (62), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 18/36 (50%), Gaps = 2/36 (5%)
Query: 27 DAEEKQVKDKAVRH--WLGRLKYASYDIEDVLDEWI 60
D EE + V H WL R +Y D +LDEWI
Sbjct: 209 DPEEVDWQVAGVNHGIWLNRFRYRGEDAYPLLDEWI 244
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
0.319 0.137 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,363,926
Number of Sequences: 62578
Number of extensions: 464011
Number of successful extensions: 1282
Number of sequences better than 100.0: 29
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 28
Number of HSP's that attempted gapping in prelim test: 1274
Number of HSP's gapped (non-prelim): 45
length of query: 488
length of database: 14,973,337
effective HSP length: 103
effective length of query: 385
effective length of database: 8,527,803
effective search space: 3283204155
effective search space used: 3283204155
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)