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= 020238
(329 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 = 0.002, Method: Compositional matrix adjust.
Identities = 40/145 (27%), Positives = 62/145 (42%), Gaps = 12/145 (8%)
Query: 56 LRILPPGIFRLEFLKELDLWGCSKLKTLPE----ISSAG------NIEVMYLNGTAIEEL 105
LR LP I L L+EL + C +L LPE ++G N++ + L T I L
Sbjct: 139 LRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSL 198
Query: 106 PSSIECLSGLSALYLDHCXXXXXXXXXXXXXXXXXXIYLRWCSSLKSLPNELGNLEALNS 165
P+SI L L +L + + + LR C++L++ P G L
Sbjct: 199 PASIANLQNLKSLKIRNS-PLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKR 257
Query: 166 LNAEG-TAIREVPLSIVRLNNFDGL 189
L + + + +PL I RL + L
Sbjct: 258 LILKDCSNLLTLPLDIHRLTQLEKL 282
Score = 37.0 bits (84), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 30/76 (39%), Positives = 36/76 (47%), Gaps = 2/76 (2%)
Query: 41 HLDKLVNLNLNNCKSLRILPPGIFRLEFLKELDLWGCSKLKTLP-EISSAGNIEVMYLNG 99
HL KL L+L C +LR PP LK L L CS L TLP +I +E + L G
Sbjct: 227 HLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRG 286
Query: 100 -TAIEELPSSIECLSG 114
+ LPS I L
Sbjct: 287 CVNLSRLPSLIAQLPA 302
Score = 35.4 bits (80), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 30/84 (35%), Positives = 40/84 (47%), Gaps = 9/84 (10%)
Query: 49 NLNNCKSLRI-------LPPGIFRLEFLKELDLWGCSKLKTLPEI--SSAGNIEVMYLNG 99
NL N KSL+I L P I L L+ELDL GC+ L+ P I A ++ +
Sbjct: 204 NLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDC 263
Query: 100 TAIEELPSSIECLSGLSALYLDHC 123
+ + LP I L+ L L L C
Sbjct: 264 SNLLTLPLDIHRLTQLEKLDLRGC 287
Score = 32.0 bits (71), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 57/235 (24%), Positives = 77/235 (32%), Gaps = 86/235 (36%)
Query: 59 LPPGIFRLEFLKELDLWGCSKLKTLPEISSA-GNIEVMYLNGTAIEELPSSIECLSGLSA 117
P FRL L+ + + L LP+ +E + L + LP+SI L+ L
Sbjct: 96 FPDQAFRLSHLQHXTI-DAAGLXELPDTXQQFAGLETLTLARNPLRALPASIASLNRLRE 154
Query: 118 LYLDHCXXXXXXXXXXXXXXXXXXIYLRWCSSLKSLPNELGNLEA---------LNSLNA 168
L + R C L LP L + +A L SL
Sbjct: 155 LSI------------------------RACPELTELPEPLASTDASGEHQGLVNLQSLRL 190
Query: 169 EGTAIREVPLSIVRLNNFDGLQNLTSLYLTDCGITXXXXXXXXXXXXXXXXXXXXXXXRL 228
E T IR +P SI LQNL SL + + ++ L
Sbjct: 191 EWTGIRSLPASIA------NLQNLKSLKIRNSPLSA-----------------------L 221
Query: 229 PESIIHLSKLAYLKLSYCERLQSLPKLPCNLSELDAHHCTALESSPGLVFPSRDP 283
+I HL KL ELD CTAL + P +F R P
Sbjct: 222 GPAIHHLPKL---------------------EELDLRGCTALRNYPP-IFGGRAP 254
>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 = 36.2 bits (82), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 34/122 (27%), Positives = 49/122 (40%), Gaps = 8/122 (6%)
Query: 74 LWGCSKLKTLPEISSAGNI------EVMYLNGTAIEELPSSIECLSGLSALYLDHCXXXX 127
LW L L + + NI +YLNG ++ ELP+ I+ LS L L L H
Sbjct: 225 LWHALDLSNLQIFNISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTS 284
Query: 128 XXXXXXXXXXXXXXIYLRWCSSLKSLPNELGNLEALNSLNAEGTAIREVPLSIVRLNNFD 187
+ + + +LP E GNL L L EG + + L I+ +
Sbjct: 285 LPAELGSCFQLKYFYFFD--NMVTTLPWEFGNLCNLQFLGVEGNPLEKQFLKILTEKSVT 342
Query: 188 GL 189
GL
Sbjct: 343 GL 344
>pdb|1G9U|A Chain A, Crystal Structure Of Yopm-leucine Rich Effector Protein
From Yersinia Pestis
pdb|1JL5|A Chain A, Novel Molecular Architecture Of Yopm-A Leucine-Rich
Effector Protein From Yersinia Pestis
Length = 454
Score = 32.0 bits (71), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 68/288 (23%), Positives = 116/288 (40%), Gaps = 31/288 (10%)
Query: 44 KLVNLNLNNCKSLRILPPGIFRLEFLKELDLWGCSKLKTLPEISSAGNIEVMYLNGTAIE 103
K+++++ N+ K L LPP LEF+ G ++L+ LPE+ + + +Y + +++
Sbjct: 156 KIIDVDNNSLKKLPDLPPS---LEFIA----AGNNQLEELPELQNLPFLTAIYADNNSLK 208
Query: 104 ELPSSIECLSGLSALYLDHCXXXXXXXXXXXXXXXXXXIYLRWCSSLKSLPNELGNLEAL 163
+LP L + A IY + LK+LP+ +LEAL
Sbjct: 209 KLPDLPLSLESIVA-----GNNILEELPELQNLPFLTTIYAD-NNLLKTLPDLPPSLEAL 262
Query: 164 NSLNAEGTAIREVPLSIVRL----NNFDGLQNL-TSLYLTDCGITXXXXXXXXXXXXXXX 218
N + T + E+P S+ L N F GL L +LY +
Sbjct: 263 NVRDNYLTDLPELPQSLTFLDVSENIFSGLSELPPNLYYLNASSNEIRSLCDLPPSLEEL 322
Query: 219 XXXXXXXXRLPESIIHLSKLAYLKLSYCERLQSLPKLPCNLSELDAHHCTALESSPGLVF 278
LP L +L ++ L +P+LP NL +L +E +P F
Sbjct: 323 NVSNNKLIELPALPPRLERL----IASFNHLAEVPELPQNLKQL------HVEYNPLREF 372
Query: 279 PSRDPQYFDLRNNLKLDRNEIREILEDAQQ-EIQVMAIARWKQLQEKV 325
P DLR N L E+ E+ ++ +Q ++ + + + E V
Sbjct: 373 PDIPESVEDLRMNSHLA--EVPELPQNLKQLHVETNPLREFPDIPESV 418
>pdb|4DOZ|A Chain A, Crystal Structure Of Pyrococcus Furiosus Cmr2 (Cas10)
Length = 686
Score = 31.6 bits (70), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 28/52 (53%), Gaps = 2/52 (3%)
Query: 31 TKSPNHSLTLHLDKLVNLNLNNCKSLR--ILPPGIFRLEFLKELDLWGCSKL 80
T+ P+H++ HLD L++ + LR I+P F K+LDLW S L
Sbjct: 4 TRFPDHAIWTHLDLTSALSVKDPTLLRIKIVPVQPFIANSRKQLDLWASSHL 55
>pdb|2Z7X|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 520
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 26/48 (54%), Gaps = 5/48 (10%)
Query: 150 LKSLPNELGNLEALNSLNAEGTAIREVPLSIVRLNNFDGLQNLTSLYL 197
+KS+P ++ LEAL LN ++ VP I FD L +L ++L
Sbjct: 433 IKSIPKQVVKLEALQELNVASNQLKSVPDGI-----FDRLTSLQKIWL 475
>pdb|3EGJ|A Chain A, N-Acetylglucosamine-6-Phosphate Deacetylase From Vibrio
Cholerae.
pdb|3EGJ|B Chain B, N-Acetylglucosamine-6-Phosphate Deacetylase From Vibrio
Cholerae.
pdb|3IV8|A Chain A, N-Acetylglucosamine-6-Phosphate Deacetylase From Vibrio
Cholerae Complexed With Fructose 6-Phosphate
pdb|3IV8|B Chain B, N-Acetylglucosamine-6-Phosphate Deacetylase From Vibrio
Cholerae Complexed With Fructose 6-Phosphate
pdb|3IV8|C Chain C, N-Acetylglucosamine-6-Phosphate Deacetylase From Vibrio
Cholerae Complexed With Fructose 6-Phosphate
pdb|3IV8|D Chain D, N-Acetylglucosamine-6-Phosphate Deacetylase From Vibrio
Cholerae Complexed With Fructose 6-Phosphate
Length = 381
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 27/55 (49%), Gaps = 9/55 (16%)
Query: 19 LKQIISRASNFFTKSPNHSLTLHLDKLVNLNLNNCKSLRILPPGIFRLEFLKELD 73
++Q I+ A + K PN SL LHL+ L ++ GI ++F++ D
Sbjct: 107 MRQAIAAAREYQAKYPNQSLGLHLEG---------PYLNVMKKGIHSVDFIRPSD 152
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 29.3 bits (64), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 33/99 (33%), Positives = 49/99 (49%), Gaps = 14/99 (14%)
Query: 229 PESIIHLSKLAYLKLSYCERLQSLPKLP----CNLSELDAHHCTALESSPGLVFPSRDPQ 284
P L+KL YL L Y E LQSLPK +L EL ++ L+ P F +
Sbjct: 126 PRVFDSLTKLTYLSLGYNE-LQSLPKGVFDKLTSLKELRLYN-NQLKRVPEGAFD----K 179
Query: 285 YFDLRNNLKLDRNEIREILEDAQQEIQVMAIARWKQLQE 323
+L+ LKLD N+++ + E A ++ + + QLQE
Sbjct: 180 LTELKT-LKLDNNQLKRVPEGAFDSLEKLKML---QLQE 214
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 28.5 bits (62), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 27/50 (54%), Gaps = 5/50 (10%)
Query: 150 LKSLPNELGNLEALNSLNAEGTAIREVPLSIVRLNNFDGLQNLTSLYLTD 199
+ S+P ++ +L+AL LN ++ VP + FD L +L ++L D
Sbjct: 462 IMSIPKDVTHLQALQELNVASNQLKSVPDGV-----FDRLTSLQYIWLHD 506
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
0.320 0.136 0.412
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,235,849
Number of Sequences: 62578
Number of extensions: 277653
Number of successful extensions: 692
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 676
Number of HSP's gapped (non-prelim): 16
length of query: 329
length of database: 14,973,337
effective HSP length: 99
effective length of query: 230
effective length of database: 8,778,115
effective search space: 2018966450
effective search space used: 2018966450
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 52 (24.6 bits)