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= 045942
(131 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 = 3e-04, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 33/65 (50%), Gaps = 1/65 (1%)
Query: 45 VDCPNFMALPGSLKDLEALETLVIARCPKLSSLPEDMHHVTTLKSLAIAECPALSERCKP 104
+D LP + + LETL +AR P L +LP + + L+ L+I CP L+E +P
Sbjct: 111 IDAAGLXELPDTXQQFAGLETLTLARNP-LRALPASIASLNRLRELSIRACPELTELPEP 169
Query: 105 PTGED 109
D
Sbjct: 170 LASTD 174
Score = 33.5 bits (75), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 34/102 (33%), Positives = 50/102 (49%), Gaps = 15/102 (14%)
Query: 13 LRRVVIGEITQFLELPQWLLQCCTD---------TLQSLIIVDCPNFMALPGSLKDLEAL 63
LR + I + ELP+ L TD LQSL + + +LP S+ +L+ L
Sbjct: 152 LRELSIRACPELTELPEPL--ASTDASGEHQGLVNLQSLRL-EWTGIRSLPASIANLQNL 208
Query: 64 ETLVIARCPKLSSLPEDMHHVTTLKSLAIAECPALSERCKPP 105
++L I P LS+L +HH+ L+ L + C AL R PP
Sbjct: 209 KSLKIRNSP-LSALGPAIHHLPKLEELDLRGCTAL--RNYPP 247
Score = 31.6 bits (70), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 22/40 (55%)
Query: 39 LQSLIIVDCPNFMALPGSLKDLEALETLVIARCPKLSSLP 78
L+ LI+ DC N + LP + L LE L + C LS LP
Sbjct: 255 LKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLP 294
Score = 31.2 bits (69), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 33/70 (47%), Gaps = 4/70 (5%)
Query: 12 HLRRVVIGEITQFLELPQWLLQCCTDTLQSLIIVDCPNFMALPGSLKDLEALETLVIARC 71
HL+ I + ELP Q L++L + P ALP S+ L L L I C
Sbjct: 105 HLQHXTI-DAAGLXELPDTXQQFAG--LETLTLARNP-LRALPASIASLNRLRELSIRAC 160
Query: 72 PKLSSLPEDM 81
P+L+ LPE +
Sbjct: 161 PELTELPEPL 170
Score = 29.6 bits (65), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 28/62 (45%)
Query: 39 LQSLIIVDCPNFMALPGSLKDLEALETLVIARCPKLSSLPEDMHHVTTLKSLAIAECPAL 98
L+ L + C P L+ L++ C L +LP D+H +T L+ L + C L
Sbjct: 231 LEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNL 290
Query: 99 SE 100
S
Sbjct: 291 SR 292
>pdb|1OR7|A Chain A, Crystal Structure Of Escherichia Coli Sigmae With The
Cytoplasmic Domain Of Its Anti-Sigma Rsea
pdb|1OR7|B Chain B, Crystal Structure Of Escherichia Coli Sigmae With The
Cytoplasmic Domain Of Its Anti-Sigma Rsea
Length = 194
Score = 29.6 bits (65), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 23/102 (22%), Positives = 44/102 (43%), Gaps = 29/102 (28%)
Query: 30 WLLQCCTDTLQSLII-------------VDCPNFMALPGSLKDLEALETLVIAR------ 70
WL + +T ++ ++ ++ NF + G+LK++ E L+++
Sbjct: 76 WLYRIAVNTAKNYLVAQGRRPPSSDVDAIEAENFES-GGALKEISNPENLMLSEELRQIV 134
Query: 71 CPKLSSLPEDMHHVTTLKSL---------AIAECPALSERCK 103
+ SLPED+ TL+ L AI +CP + R +
Sbjct: 135 FRTIESLPEDLRMAITLRELDGLSYEEIAAIMDCPVGTVRSR 176
>pdb|4H09|A Chain A, Crystal Structure Of A Hypothetical Leucine Rich Repeat
Protein (Eubven_01088) From Eubacterium Ventriosum Atcc
27560 At 2.50 A Resolution
pdb|4H09|B Chain B, Crystal Structure Of A Hypothetical Leucine Rich Repeat
Protein (Eubven_01088) From Eubacterium Ventriosum Atcc
27560 At 2.50 A Resolution
pdb|4H09|C Chain C, Crystal Structure Of A Hypothetical Leucine Rich Repeat
Protein (Eubven_01088) From Eubacterium Ventriosum Atcc
27560 At 2.50 A Resolution
pdb|4H09|D Chain D, Crystal Structure Of A Hypothetical Leucine Rich Repeat
Protein (Eubven_01088) From Eubacterium Ventriosum Atcc
27560 At 2.50 A Resolution
pdb|4H09|E Chain E, Crystal Structure Of A Hypothetical Leucine Rich Repeat
Protein (Eubven_01088) From Eubacterium Ventriosum Atcc
27560 At 2.50 A Resolution
Length = 379
Score = 29.6 bits (65), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 37/94 (39%), Gaps = 16/94 (17%)
Query: 26 ELPQWLLQCCT-----------DTLQSLIIVDCPNFMALPGSLKDLEALETLVIARCPKL 74
+ +LLQ CT T+ L+ C N + +E LE V C KL
Sbjct: 253 SIGSFLLQNCTALKTLNFYAKVKTVPYLLCSGCSNLTKVVXDNSAIETLEPRVFXDCVKL 312
Query: 75 SS--LPEDMHHVTTLKSLAIAECPALSERCKPPT 106
SS LP + T++ A C ALS P +
Sbjct: 313 SSVTLPTALK---TIQVYAFKNCKALSTISYPKS 343
>pdb|4ECN|A Chain A, Crystal Structure Of A Leucine-Rich Repeat Protein
(Bt_0210) From Bacteroides Thetaiotaomicron Vpi-5482 At
2.80 A Resolution
Length = 876
Score = 27.7 bits (60), Expect = 2.1, Method: Composition-based stats.
Identities = 18/59 (30%), Positives = 30/59 (50%), Gaps = 6/59 (10%)
Query: 56 SLKDLEALETLVIARCPKLSSLPEDMHHVTTLKSLAIAECPALSERCKPPTGEDWPKIA 114
+LKDL +E + CP + LP+ ++ + L+SL IA +S DW ++A
Sbjct: 489 NLKDLTDVE---LYNCPNXTQLPDFLYDLPELQSLNIACNRGIS---AAQLKADWTRLA 541
>pdb|1BHY|A Chain A, Low Temperature Middle Resolution Structure Of P64k From
Masc Data
Length = 482
Score = 26.6 bits (57), Expect = 4.5, Method: Composition-based stats.
Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 3/49 (6%)
Query: 52 ALPGSLKDLEALETLVIA---RCPKLSSLPEDMHHVTTLKSLAIAECPA 97
A P K + A + +IA R KL +PED + + +LA+ E P
Sbjct: 138 AAPTGEKKIVAFKNCIIAAGSRVTKLPFIPEDPRIIDSSGALALKEVPG 186
>pdb|1OJT|A Chain A, Structure Of Dihydrolipoamide Dehydrogenase
Length = 482
Score = 26.6 bits (57), Expect = 4.7, Method: Composition-based stats.
Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 3/49 (6%)
Query: 52 ALPGSLKDLEALETLVIA---RCPKLSSLPEDMHHVTTLKSLAIAECPA 97
A P K + A + +IA R KL +PED + + +LA+ E P
Sbjct: 138 AAPTGEKKIVAFKNCIIAAGSRVTKLPFIPEDPRIIDSSGALALKEVPG 186
>pdb|2Z64|A Chain A, Crystal Structure Of Mouse Tlr4 And Mouse Md-2 Complex
Length = 599
Score = 26.2 bits (56), Expect = 6.1, Method: Composition-based stats.
Identities = 24/68 (35%), Positives = 31/68 (45%), Gaps = 4/68 (5%)
Query: 39 LQSLIIVDCPNFMALPGSLKDLEALETLVIARCPKLSSLPE-DMHHVTTLKSLAIAECPA 97
L +LI+ P PGS L +LE LV KL+SL + + TLK L +A
Sbjct: 77 LSNLILTGNPIQSFSPGSFSGLTSLENLVAVET-KLASLESFPIGQLITLKKLNVAH--N 133
Query: 98 LSERCKPP 105
CK P
Sbjct: 134 FIHSCKLP 141
>pdb|3VQ1|A Chain A, Crystal Structure Of Mouse Tlr4MD-2LIPID IVA COMPLEX
pdb|3VQ1|B Chain B, Crystal Structure Of Mouse Tlr4MD-2LIPID IVA COMPLEX
pdb|3VQ2|A Chain A, Crystal Structure Of Mouse Tlr4MD-2LPS COMPLEX
pdb|3VQ2|B Chain B, Crystal Structure Of Mouse Tlr4MD-2LPS COMPLEX
Length = 606
Score = 25.8 bits (55), Expect = 6.2, Method: Composition-based stats.
Identities = 24/68 (35%), Positives = 31/68 (45%), Gaps = 4/68 (5%)
Query: 39 LQSLIIVDCPNFMALPGSLKDLEALETLVIARCPKLSSLPE-DMHHVTTLKSLAIAECPA 97
L +LI+ P PGS L +LE LV KL+SL + + TLK L +A
Sbjct: 82 LSNLILTGNPIQSFSPGSFSGLTSLENLVAVET-KLASLESFPIGQLITLKKLNVAH--N 138
Query: 98 LSERCKPP 105
CK P
Sbjct: 139 FIHSCKLP 146
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
0.321 0.137 0.431
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,943,162
Number of Sequences: 62578
Number of extensions: 130774
Number of successful extensions: 289
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: 280
Number of HSP's gapped (non-prelim): 12
length of query: 131
length of database: 14,973,337
effective HSP length: 88
effective length of query: 43
effective length of database: 9,466,473
effective search space: 407058339
effective search space used: 407058339
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: 46 (22.3 bits)