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= 003802
(794 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 = 40.8 bits (94), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 30/82 (36%), Positives = 41/82 (50%), Gaps = 6/82 (7%)
Query: 412 IKYLWKGIKPLKELKFMNLSHSCNLIRTPDFTGVPNLERLNLEGCTRLLEVHQSVG---T 468
I+ L I L+ LK + + +S P +P LE L+L GCT L G
Sbjct: 195 IRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAP 254
Query: 469 LKRLILLNLKDCRNLVSFPKNV 490
LKRLIL KDC NL++ P ++
Sbjct: 255 LKRLIL---KDCSNLLTLPLDI 273
Score = 37.4 bits (85), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 50/176 (28%), Positives = 68/176 (38%), Gaps = 27/176 (15%)
Query: 465 SVGTLKRLILLNLKDCRNLVSFPKNVCLMKSXXXXXXXXXXXXXXXPQDLGEVECLEELD 524
S+ +L RL L+++ C L P+ + + + G V L+ L
Sbjct: 145 SIASLNRLRELSIRACPELTELPEPLASTDASG--------------EHQGLVN-LQSLR 189
Query: 525 VGGTAIRQIPPSIVQLVNLKIFSLHGCKGQPPKIXXXXXXXXXXXXXXXXDSMCLSF--- 581
+ T IR +P SI L NLK + P C +
Sbjct: 190 LEWTGIRSLPASIANLQNLKSLKIRNS----PLSALGPAIHHLPKLEELDLRGCTALRNY 245
Query: 582 -PRFTGLSSLQTLDLSDC-NLLEGAIPSDIGSLFSLEAIDLSGN-NFFSLPSSINQ 634
P F G + L+ L L DC NLL +P DI L LE +DL G N LPS I Q
Sbjct: 246 PPIFGGRAPLKRLILKDCSNLL--TLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQ 299
Score = 33.1 bits (74), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 46/144 (31%), Positives = 66/144 (45%), Gaps = 27/144 (18%)
Query: 336 EAIIVDVPEMTEL-----------EAKSFSTMSNLRL--LEINNLYSS-GNLEYLSNNLR 381
E I PE+TEL E + + +LRL I +L +S NL+ NL+
Sbjct: 154 ELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQ----NLK 209
Query: 382 YLKWHEYPFNSL-PVSFRPEKLFKLNL--CNSRIKY--LWKGIKPLKELKFMNLSHSCNL 436
LK P ++L P KL +L+L C + Y ++ G PLK L + S NL
Sbjct: 210 SLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCS---NL 266
Query: 437 IRTP-DFTGVPNLERLNLEGCTRL 459
+ P D + LE+L+L GC L
Sbjct: 267 LTLPLDIHRLTQLEKLDLRGCVNL 290
>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 = 39.3 bits (90), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 23/45 (51%), Positives = 29/45 (64%), Gaps = 1/45 (2%)
Query: 584 FTGLSSLQTLDLSDCNLLEGAIPSDIGSLFSLEAIDLSGNNFFSL 628
FT L +L LDLS C L E P+ SL SL+ +++S NNFFSL
Sbjct: 466 FTELRNLTFLDLSQCQL-EQLSPTAFNSLSSLQVLNMSHNNFFSL 509
>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 = 39.3 bits (90), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 23/45 (51%), Positives = 29/45 (64%), Gaps = 1/45 (2%)
Query: 584 FTGLSSLQTLDLSDCNLLEGAIPSDIGSLFSLEAIDLSGNNFFSL 628
FT L +L LDLS C L E P+ SL SL+ +++S NNFFSL
Sbjct: 490 FTELRNLTFLDLSQCQL-EQLSPTAFNSLSSLQVLNMSHNNFFSL 533
>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 = 38.9 bits (89), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 23/45 (51%), Positives = 29/45 (64%), Gaps = 1/45 (2%)
Query: 584 FTGLSSLQTLDLSDCNLLEGAIPSDIGSLFSLEAIDLSGNNFFSL 628
FT L +L LDLS C L E P+ SL SL+ +++S NNFFSL
Sbjct: 171 FTELRNLTFLDLSQCQL-EQLSPTAFNSLSSLQVLNMSHNNFFSL 214
>pdb|3T6Q|A Chain A, Crystal Structure Of Mouse Rp105MD-1 Complex
pdb|3T6Q|B Chain B, Crystal Structure Of Mouse Rp105MD-1 Complex
Length = 606
Score = 33.9 bits (76), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 57/223 (25%), Positives = 92/223 (41%), Gaps = 30/223 (13%)
Query: 283 IVNNKLWMHDLLQEMGWEIVREHHSDKPGKWSRLWLYKDVYHVLSKYMGTDAVEAIIVDV 342
I +N LQE+ ++ H S+ P L K + VLS + + +
Sbjct: 269 ISSNTFHCFSGLQEL--DLTATHLSELPSGLVGLSTLKKL--VLSANKFENLCQISASNF 324
Query: 343 PEMTELEAKS-----------FSTMSNLRLLEI--NNLYSSGNLEYLSNNLRYLKWHEYP 389
P +T L K + NLR L++ +++ +S NL +L+
Sbjct: 325 PSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHDDIETSDCCNLQLRNLSHLQSLNLS 384
Query: 390 FNSLPVSFRPE--------KLFKLNLCNSRIKYLWKGIKPLKELKFMNLSHSCNLIRTPD 441
+N P+S + E +L L ++K + L LK +NLSHS I +
Sbjct: 385 YNE-PLSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSHSLLDISSEQ 443
Query: 442 -FTGVPNLERLNLEGC---TRLLEVHQSVGTLKRLILLNLKDC 480
F G+P L+ LNL+G ++ S+ TL RL +L L C
Sbjct: 444 LFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFC 486
>pdb|3ZYJ|A Chain A, Netring1 In Complex With Ngl1
pdb|3ZYJ|C Chain C, Netring1 In Complex With Ngl1
Length = 440
Score = 33.5 bits (75), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 31/45 (68%), Gaps = 3/45 (6%)
Query: 584 FTGLSSLQTLDLSDCNLLEGAIPSDIGSLFSLEAIDLSGNNFFSL 628
F GLS+L+ L+L+ CNL E IP ++ L L+ +DLSGN+ ++
Sbjct: 181 FEGLSNLRYLNLAMCNLRE--IP-NLTPLIKLDELDLSGNHLSAI 222
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 33.1 bits (74), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 20/49 (40%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 584 FTGLSSLQTLDLSDCNLLEGAIPSDIGSLFSLEAIDLSGNNFFSLPSSI 632
FT L +L LDLS C LE P+ SL SL+ ++++ N S+P I
Sbjct: 466 FTELRNLTFLDLSQCQ-LEQLSPTAFNSLSSLQVLNMASNQLKSVPDGI 513
>pdb|2PBR|A Chain A, Crystal Structure Of Thymidylate Kinase (Aq_969) From
Aquifex Aeolicus Vf5
pdb|2PBR|B Chain B, Crystal Structure Of Thymidylate Kinase (Aq_969) From
Aquifex Aeolicus Vf5
Length = 195
Score = 33.1 bits (74), Expect = 0.62, Method: Composition-based stats.
Identities = 32/92 (34%), Positives = 50/92 (54%), Gaps = 8/92 (8%)
Query: 17 FIGICGMGGIGKTTLAKVLYNTLKDQFEASSFLANVREVSVTRGLVPLQEQLLSEVLMER 76
I G+ G GKTT AK LY LK + F++ RE T+ L+E LL+E L ER
Sbjct: 2 LIAFEGIDGSGKTTQAKKLYEYLK---QKGYFVSLYREPGGTKVGEVLREILLTEELDER 58
Query: 77 -DLIIWDVHKGINLIRWRLC---RKRVLVILD 104
+L++++ + LI ++ ++ +VILD
Sbjct: 59 TELLLFEASRS-KLIEEKIIPDLKRDKVVILD 89
>pdb|1W5S|A Chain A, Structure Of The Aeropyrum Pernix Orc2 Protein (Adp
Form)
pdb|1W5S|B Chain B, Structure Of The Aeropyrum Pernix Orc2 Protein (Adp
Form)
pdb|1W5T|A Chain A, Structure Of The Aeropyrum Pernix Orc2 Protein
(Adpnp-Adp Complexes)
pdb|1W5T|B Chain B, Structure Of The Aeropyrum Pernix Orc2 Protein
(Adpnp-Adp Complexes)
pdb|1W5T|C Chain C, Structure Of The Aeropyrum Pernix Orc2 Protein
(Adpnp-Adp Complexes)
Length = 412
Score = 31.2 bits (69), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 21/39 (53%), Positives = 24/39 (61%), Gaps = 4/39 (10%)
Query: 10 AGLDDVRFI-GICGMGGIGKTTLAKVLYNTLKDQFEASS 47
AGL DV I G G GIGKTTLAK T+K EA++
Sbjct: 46 AGLSDVNMIYGSIGRVGIGKTTLAKF---TVKRVSEAAA 81
>pdb|3OZX|A Chain A, Crystal Structure Of Abce1 Of Sulfolubus Solfataricus
(-Fes Domain)
pdb|3OZX|B Chain B, Crystal Structure Of Abce1 Of Sulfolubus Solfataricus
(-Fes Domain)
Length = 538
Score = 30.4 bits (67), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 26/54 (48%), Gaps = 16/54 (29%)
Query: 17 FIGICGMGGIGKTTLAKVLYNTLKDQFEASSFLANVREVSVTRGLVPLQEQLLS 70
IGI G GIGKTT A++L V E++ G V ++Q+LS
Sbjct: 296 IIGILGPNGIGKTTFARIL----------------VGEITADEGSVTPEKQILS 333
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 0.139 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,471,527
Number of Sequences: 62578
Number of extensions: 905579
Number of successful extensions: 2312
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 2257
Number of HSP's gapped (non-prelim): 83
length of query: 794
length of database: 14,973,337
effective HSP length: 107
effective length of query: 687
effective length of database: 8,277,491
effective search space: 5686636317
effective search space used: 5686636317
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: 55 (25.8 bits)