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= 044085
(1151 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1Z6T|A Chain A, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|B Chain B, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|C Chain C, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|D Chain D, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
Length = 591
Score = 52.8 bits (125), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 69/279 (24%), Positives = 110/279 (39%), Gaps = 45/279 (16%)
Query: 172 IPITGMGGLGKTTLA-QLVFNDVRVEEHFPDFRAWAYVSEDFDAVGITKVILQAAVGSVD 230
+ I GM G GK+ LA + V + +E FP W V + D G+ + LQ +D
Sbjct: 150 VTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQ-DKSGLL-MKLQNLCTRLD 207
Query: 231 VNDXXXXXXXXXXXXXXXX-----------XXXVLDDMWTENYDDWTNLCKPFKAGLPGS 279
++ +LDD+W D W KA
Sbjct: 208 QDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVW----DSWV-----LKAFDSQC 258
Query: 280 KIIVTTRNEDVSSMVTTPSAAYSLENLLRDD----CLSIFVRHSLGRTDFSAHQYLSEIG 335
+I++TTR++ V+ V P +E+ L + LS+FV ++ + D L E
Sbjct: 259 QILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFV--NMKKAD------LPEQA 310
Query: 336 EKIVDKCNGSPLAAKTLGGLLRGKYDPKDWEDVL----NSKIWDLDE----DKSGIMRAL 387
I+ +C GSPL +G LLR P WE L N + + + D + A+
Sbjct: 311 HSIIKECKGSPLVVSLIGALLRDF--PNRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAM 368
Query: 388 RVSYYYLPSHVKRCFAHCSLLPKGYPFDERQIVLLWMAE 426
+S L +K + S+L K + + +LW E
Sbjct: 369 SISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILWDME 407
>pdb|3IZA|A Chain A, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|B Chain B, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|C Chain C, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|D Chain D, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|E Chain E, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|F Chain F, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|G Chain G, Structure Of An Apoptosome-Procaspase-9 Card Complex
Length = 1263
Score = 50.8 bits (120), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 69/279 (24%), Positives = 110/279 (39%), Gaps = 45/279 (16%)
Query: 172 IPITGMGGLGKTTLA-QLVFNDVRVEEHFPDFRAWAYVSEDFDAVGITKVILQAAVGSVD 230
+ I GM G GK+ LA + V + +E FP W V + D G+ + LQ +D
Sbjct: 156 VTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQ-DKSGLL-MKLQNLCTRLD 213
Query: 231 VNDXXXXXXXXXXXXXXXX-----------XXXVLDDMWTENYDDWTNLCKPFKAGLPGS 279
++ +LDD+W D W KA
Sbjct: 214 QDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVW----DSWV-----LKAFDSQC 264
Query: 280 KIIVTTRNEDVSSMVTTPSAAYSLENLLRDD----CLSIFVRHSLGRTDFSAHQYLSEIG 335
+I++TTR++ V+ V P +E+ L + LS+FV ++ + D L E
Sbjct: 265 QILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFV--NMKKAD------LPEQA 316
Query: 336 EKIVDKCNGSPLAAKTLGGLLRGKYDPKDWEDVL----NSKIWDLDE----DKSGIMRAL 387
I+ +C GSPL +G LLR P WE L N + + + D + A+
Sbjct: 317 HSIIKECKGSPLVVSLIGALLRDF--PNRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAM 374
Query: 388 RVSYYYLPSHVKRCFAHCSLLPKGYPFDERQIVLLWMAE 426
+S L +K + S+L K + + +LW E
Sbjct: 375 SISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILWDME 413
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type Iii
Effector Xcv3220 (Xopl)
Length = 328
Score = 44.7 bits (104), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 52/187 (27%), Positives = 80/187 (42%), Gaps = 35/187 (18%)
Query: 934 PDGLHKLSHITTISMYGSRLVSFAEGGLP-SNLCSLTLFGCRYLTALPNGIYNLSSLQHL 992
PD +LSH+ ++ + L + + L +LTL L ALP I +L+ L+ L
Sbjct: 97 PDQAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTL-ARNPLRALPASIASLNRLREL 155
Query: 993 EIRACPRIASIPEEVGFPP---------NITELHIEGPNICKLFFDLGFHNLTSVRDLFI 1043
IRACP + +PE + N+ L +E I L + NL +++ L I
Sbjct: 156 SIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIA--NLQNLKSLKI 213
Query: 1044 KDGLEDEVSFQKLPNSLVKLNIREFPGLESLSF-----VRNL-------TSLERLTLCEC 1091
++ P S + I P LE L +RN L+RL L +C
Sbjct: 214 RNS----------PLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDC 263
Query: 1092 PNLISLP 1098
NL++LP
Sbjct: 264 SNLLTLP 270
Score = 33.9 bits (76), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 39/88 (44%)
Query: 568 ILQLPNDIGELKHLRYLEFSRTAIEVLPESVSTLYNLQTLILERCYRLKKLFPDIGNLTN 627
I LP I L++L+ L+ + + L ++ L L+ L L C L+ P G
Sbjct: 195 IRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAP 254
Query: 628 LRHLKNSHSNLFEEMPLRIGKLTSLRTL 655
L+ L + +PL I +LT L L
Sbjct: 255 LKRLILKDCSNLLTLPLDIHRLTQLEKL 282
Score = 33.1 bits (74), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 37/71 (52%), Gaps = 2/71 (2%)
Query: 741 GLKELKVQGYGGAKLPTWLGQSSFKNLVVLRFRNCNQCTSLPSVGHLPSLKNLVIKGMAK 800
L+ L+++ G LP + ++ +NL L+ RN P++ HLP L+ L ++G
Sbjct: 184 NLQSLRLEWTGIRSLPASI--ANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTA 241
Query: 801 VKSVGLEFCGK 811
+++ F G+
Sbjct: 242 LRNYPPIFGGR 252
Score = 32.0 bits (71), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 26/111 (23%), Positives = 51/111 (45%), Gaps = 10/111 (9%)
Query: 554 RLRRLRVLSLCGYWILQLPNDIGELKHLRYLEFSRTAIEVLPESVSTLYNLQTLILERCY 613
RL L+ ++ + +LP+ + L L +R + LP S+++L L+ L + C
Sbjct: 102 RLSHLQHXTIDAAGLXELPDTXQQFAGLETLTLARNPLRALPASIASLNRLRELSIRACP 161
Query: 614 RLKKLFPDIGN---------LTNLRHLKNSHSNLFEEMPLRIGKLTSLRTL 655
L +L + + L NL+ L+ + + +P I L +L++L
Sbjct: 162 ELTELPEPLASTDASGEHQGLVNLQSLRLEWTGI-RSLPASIANLQNLKSL 211
Score = 30.0 bits (66), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 34/84 (40%), Gaps = 1/84 (1%)
Query: 560 VLSLCGYWILQLPNDIGELKHLRYLEFSRTAIEVLPESVSTLYNLQTLILERCYRLKKLF 619
L L + Q P+ L HL++ + LP++ L+TL L R L+ L
Sbjct: 85 ALELRSVPLPQFPDQAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTLAR-NPLRALP 143
Query: 620 PDIGNLTNLRHLKNSHSNLFEEMP 643
I +L LR L E+P
Sbjct: 144 ASIASLNRLRELSIRACPELTELP 167
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 43.9 bits (102), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 47/188 (25%), Positives = 82/188 (43%), Gaps = 35/188 (18%)
Query: 253 VLDDMWTENYDDWTNLCKPFKAGLPGSKIIVTTRNEDVSSMVTTPSAAYSLENLL-RD-- 309
+LDD+W D W KA +I++TTR++ V+ V P +E+ L R+
Sbjct: 241 ILDDVW----DPWV-----LKAFDNQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKG 291
Query: 310 -DCLSIFVRHSLGRTDFSAHQYLSEIGEKIVDKCNGSPLAAKTLGGLLRG---------- 358
+ LS+FV ++ + D A + I+ +C GSPL +G LLR
Sbjct: 292 LEILSLFV--NMKKEDLPAEAH------SIIKECKGSPLVVSLIGALLRDFPNRWAYYLR 343
Query: 359 KYDPKDWEDVLNSKIWDLDEDKSGIMRALRVSYYYLPSHVKRCFAHCSLLPKGYPFDERQ 418
+ K ++ + S +D + + A+ +S L +K + S+L K +
Sbjct: 344 QLQNKQFKRIRKSSSYDYE----ALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKV 399
Query: 419 IVLLWMAE 426
+ +LW E
Sbjct: 400 LCVLWDLE 407
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 41.6 bits (96), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 46/188 (24%), Positives = 81/188 (43%), Gaps = 35/188 (18%)
Query: 253 VLDDMWTENYDDWTNLCKPFKAGLPGSKIIVTTRNEDVSSMVTTPSAAYSLENLL-RD-- 309
+LDD+W D W KA +I++TT ++ V+ V P +E+ L R+
Sbjct: 248 ILDDVW----DPWV-----LKAFDNQCQILLTTSDKSVTDSVMGPKHVVPVESGLGREKG 298
Query: 310 -DCLSIFVRHSLGRTDFSAHQYLSEIGEKIVDKCNGSPLAAKTLGGLLRG---------- 358
+ LS+FV ++ + D A + I+ +C GSPL +G LLR
Sbjct: 299 LEILSLFV--NMKKEDLPAEAH------SIIKECKGSPLVVSLIGALLRDFPNRWAYYLR 350
Query: 359 KYDPKDWEDVLNSKIWDLDEDKSGIMRALRVSYYYLPSHVKRCFAHCSLLPKGYPFDERQ 418
+ K ++ + S +D + + A+ +S L +K + S+L K +
Sbjct: 351 QLQNKQFKRIRKSSSYDYE----ALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKV 406
Query: 419 IVLLWMAE 426
+ +LW E
Sbjct: 407 LCVLWDLE 414
>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 = 35.0 bits (79), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 27/59 (45%)
Query: 552 IPRLRRLRVLSLCGYWILQLPNDIGELKHLRYLEFSRTAIEVLPESVSTLYNLQTLILE 610
I L LRVL L + LP ++G L+Y F + LP L NLQ L +E
Sbjct: 266 IKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYFYFFDNMVTTLPWEFGNLCNLQFLGVE 324
>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 = 34.7 bits (78), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 47/91 (51%), Gaps = 1/91 (1%)
Query: 566 YWILQLPNDIGELKHLRYLEFSRTAIEV-LPESVSTLYNLQTLILERCYRLKKLFPDIGN 624
Y +P+ +G L LR L+ +E +P+ + + L+TLIL+ ++ + N
Sbjct: 426 YLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSN 485
Query: 625 LTNLRHLKNSHSNLFEEMPLRIGKLTSLRTL 655
TNL + S++ L E+P IG+L +L L
Sbjct: 486 CTNLNWISLSNNRLTGEIPKWIGRLENLAIL 516
>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 = 34.3 bits (77), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 47/91 (51%), Gaps = 1/91 (1%)
Query: 566 YWILQLPNDIGELKHLRYLEFSRTAIEV-LPESVSTLYNLQTLILERCYRLKKLFPDIGN 624
Y +P+ +G L LR L+ +E +P+ + + L+TLIL+ ++ + N
Sbjct: 429 YLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSN 488
Query: 625 LTNLRHLKNSHSNLFEEMPLRIGKLTSLRTL 655
TNL + S++ L E+P IG+L +L L
Sbjct: 489 CTNLNWISLSNNRLTGEIPKWIGRLENLAIL 519
>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 = 33.1 bits (74), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 39/76 (51%), Gaps = 6/76 (7%)
Query: 963 SNLCSLT---LFGCRYLTALPNGIYNLSSLQHLEIRACPRIASIPEEVGFPPNITELHIE 1019
SNL LT L+ C T LP+ +Y+L LQ L I AC R S + + +
Sbjct: 488 SNLKDLTDVELYNCPNXTQLPDFLYDLPELQSLNI-ACNRGISAAQLKADWTRLADDEDT 546
Query: 1020 GPNICKLFFDLGFHNL 1035
GP I ++F+ G++NL
Sbjct: 547 GPKI-QIFY-XGYNNL 560
>pdb|3H0U|A Chain A, Crystal Structure Of A Putative Enoyl-Coa Hydratase From
Streptomyces Avermitilis
pdb|3H0U|B Chain B, Crystal Structure Of A Putative Enoyl-Coa Hydratase From
Streptomyces Avermitilis
pdb|3H0U|C Chain C, Crystal Structure Of A Putative Enoyl-Coa Hydratase From
Streptomyces Avermitilis
Length = 289
Score = 32.7 bits (73), Expect = 1.1, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 26/44 (59%), Gaps = 2/44 (4%)
Query: 827 DMQELEEWISHAGTAGGDQEAAKG--FHSLRELSIINCSKLKGR 868
DM ++ E+ + A AGG +A+ G F L +L + +KL+GR
Sbjct: 70 DMTKVPEYTAEAAKAGGPGDASLGMLFRKLSQLPAVTIAKLRGR 113
>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 = 32.3 bits (72), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 43/149 (28%), Positives = 62/149 (41%), Gaps = 27/149 (18%)
Query: 741 GLKELKVQGYGGAKLPTWL-GQSSFKNLVVLRFRNCNQCTSLPSVGHLPSLKNLVIKGMA 799
GL+EL + ++LP+ L G S+ K LV+ + N C S + PSL +L IKG
Sbjct: 279 GLQELDLTATHLSELPSGLVGLSTLKKLVLSANKFENLCQ--ISASNFPSLTHLSIKGNT 336
Query: 800 KVKSVGLEFCGKYCSEPFPSLETLCFEDMQELEEW-ISHAGTAGGDQEAAKGFHSLRELS 858
K +G T C E+++ L E +SH D + LR LS
Sbjct: 337 KRLELG----------------TGCLENLENLRELDLSHDDIETSDCCNLQ----LRNLS 376
Query: 859 IINCSKLKGRLPQRFSSLERVVIRSCEQL 887
+ L P SL+ + C QL
Sbjct: 377 HLQSLNLSYNEPL---SLKTEAFKECPQL 402
>pdb|1XKU|A Chain A, Crystal Structure Of The Dimeric Protein Core Of Decorin,
The Archetypal Small Leucine-Rich Repeat Proteoglycan
Length = 330
Score = 30.8 bits (68), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 31/51 (60%), Gaps = 4/51 (7%)
Query: 977 TALPNGIYN-LSSLQHLEIRACPRIASIPEEVGFPPNITELHIEGPNICKL 1026
+ + NG + + L ++ I A I +IP+ G PP++TELH++G I K+
Sbjct: 160 SGIENGAFQGMKKLSYIRI-ADTNITTIPQ--GLPPSLTELHLDGNKITKV 207
>pdb|1XCD|A Chain A, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 1
pdb|1XEC|A Chain A, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 2
pdb|1XEC|B Chain B, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 2
Length = 329
Score = 30.8 bits (68), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 31/51 (60%), Gaps = 4/51 (7%)
Query: 977 TALPNGIYN-LSSLQHLEIRACPRIASIPEEVGFPPNITELHIEGPNICKL 1026
+ + NG + + L ++ I A I +IP+ G PP++TELH++G I K+
Sbjct: 160 SGIENGAFQGMKKLSYIRI-ADTNITTIPQ--GLPPSLTELHLDGNKITKV 207
>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 = 30.8 bits (68), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 31/109 (28%), Positives = 53/109 (48%), Gaps = 7/109 (6%)
Query: 502 LRHLSYLCSRFDGIKRFEGLHEVEYLRTLLALPVSTRKQSFVTKNLVFHVIPRLRRLRVL 561
L L +L + +K+ LR L+ L +S + V N +F+ L L VL
Sbjct: 419 LEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDIS-HTHTRVAFNGIFN---GLSSLEVL 474
Query: 562 SLCGYWILQ--LPNDIGELKHLRYLEFSRTAIEVL-PESVSTLYNLQTL 607
+ G + LP+ EL++L +L+ S+ +E L P + ++L +LQ L
Sbjct: 475 KMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVL 523
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 30.8 bits (68), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 31/109 (28%), Positives = 53/109 (48%), Gaps = 7/109 (6%)
Query: 502 LRHLSYLCSRFDGIKRFEGLHEVEYLRTLLALPVSTRKQSFVTKNLVFHVIPRLRRLRVL 561
L L +L + +K+ LR L+ L +S + V N +F+ L L VL
Sbjct: 395 LEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDIS-HTHTRVAFNGIFN---GLSSLEVL 450
Query: 562 SLCGYWILQ--LPNDIGELKHLRYLEFSRTAIEVL-PESVSTLYNLQTL 607
+ G + LP+ EL++L +L+ S+ +E L P + ++L +LQ L
Sbjct: 451 KMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVL 499
>pdb|4AY9|X Chain X, Structure Of Follicle-Stimulating Hormone In Complex With
The Entire Ectodomain Of Its Receptor
pdb|4AY9|Y Chain Y, Structure Of Follicle-Stimulating Hormone In Complex With
The Entire Ectodomain Of Its Receptor
pdb|4AY9|Z Chain Z, Structure Of Follicle-Stimulating Hormone In Complex With
The Entire Ectodomain Of Its Receptor
Length = 350
Score = 30.4 bits (67), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 28/113 (24%), Positives = 54/113 (47%), Gaps = 10/113 (8%)
Query: 500 RNLRHLSYLCSRFDGIKR--FEGLHEVEYLRTLLALPVSTRKQSFVTKNLVFHVIPRLRR 557
RN L ++ ++ I++ F G ++E + +S V + VF +P+L
Sbjct: 30 RNAIELRFVLTKLRVIQKGAFSGFGDLE------KIEISQNDVLEVIEADVFSNLPKLHE 83
Query: 558 LRVLSLCGYWILQLPNDIGELKHLRYLEFSRTAIEVLPESVSTLYNLQTLILE 610
+R+ + P L +L+YL S T I+ LP+ V +++LQ ++L+
Sbjct: 84 IRIEKANNLLYIN-PEAFQNLPNLQYLLISNTGIKHLPD-VHKIHSLQKVLLD 134
>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 = 30.4 bits (67), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 31/109 (28%), Positives = 53/109 (48%), Gaps = 7/109 (6%)
Query: 502 LRHLSYLCSRFDGIKRFEGLHEVEYLRTLLALPVSTRKQSFVTKNLVFHVIPRLRRLRVL 561
L L +L + +K+ LR L+ L +S + V N +F+ L L VL
Sbjct: 100 LEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDIS-HTHTRVAFNGIFN---GLSSLEVL 155
Query: 562 SLCGYWILQ--LPNDIGELKHLRYLEFSRTAIEVL-PESVSTLYNLQTL 607
+ G + LP+ EL++L +L+ S+ +E L P + ++L +LQ L
Sbjct: 156 KMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVL 204
>pdb|1XWD|C Chain C, Crystal Structure Of Human Follicle Stimulating Hormone
Complexed With Its Receptor
pdb|1XWD|F Chain F, Crystal Structure Of Human Follicle Stimulating Hormone
Complexed With Its Receptor
Length = 252
Score = 30.4 bits (67), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 32/127 (25%), Positives = 58/127 (45%), Gaps = 16/127 (12%)
Query: 486 TEITWDRHNQGRFSRNLRHLSYLCSRFDGIKR--FEGLHEVEYLRTLLALPVSTRKQSFV 543
TEI D RN L ++ ++ I++ F G ++E + +S V
Sbjct: 22 TEIPSD------LPRNAIELRFVLTKLRVIQKGAFSGFGDLEKIE------ISQNDVLEV 69
Query: 544 TKNLVFHVIPRLRRLRVLSLCGYWILQLPNDIGELKHLRYLEFSRTAIEVLPESVSTLYN 603
+ VF +P+L +R+ + P L +L+YL S T I+ LP+ V +++
Sbjct: 70 IEADVFSNLPKLHEIRIEKANNLLYIN-PEAFQNLPNLQYLLISNTGIKHLPD-VHKIHS 127
Query: 604 LQTLILE 610
LQ ++L+
Sbjct: 128 LQKVLLD 134
>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 = 30.4 bits (67), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 31/109 (28%), Positives = 53/109 (48%), Gaps = 7/109 (6%)
Query: 502 LRHLSYLCSRFDGIKRFEGLHEVEYLRTLLALPVSTRKQSFVTKNLVFHVIPRLRRLRVL 561
L L +L + +K+ LR L+ L +S + V N +F+ L L VL
Sbjct: 395 LEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDIS-HTHTRVAFNGIFN---GLSSLEVL 450
Query: 562 SLCGYWILQ--LPNDIGELKHLRYLEFSRTAIEVL-PESVSTLYNLQTL 607
+ G + LP+ EL++L +L+ S+ +E L P + ++L +LQ L
Sbjct: 451 KMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVL 499
>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 = 29.6 bits (65), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 45/139 (32%), Positives = 59/139 (42%), Gaps = 31/139 (22%)
Query: 548 VFHVIPRLRRLRVLSLCGYWILQLPNDIGELKHLRYLEFSRTAIEVLPESVSTLYNLQTL 607
F+ +P LRRL D+GELK L Y+ S A E L NL+ L
Sbjct: 126 AFNRVPSLRRL---------------DLGELKRLEYI--SEAAFE-------GLVNLRYL 161
Query: 608 ILERCYRLKKLFPDIGNLTNLRHLKNSHSNLFEEMPLRIGKLTSLRTL----AKFAVGKS 663
L C LK + P++ L L L+ S + L P LTSLR L A+ A +
Sbjct: 162 NLGMC-NLKDI-PNLTALVRLEELELSGNRLDLIRPGSFQGLTSLRKLWLMHAQVATIER 219
Query: 664 NC-SGLRELRSLTLLQDKL 681
N L+ L L L + L
Sbjct: 220 NAFDDLKSLEELNLSHNNL 238
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 0.138 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 33,930,373
Number of Sequences: 62578
Number of extensions: 1430739
Number of successful extensions: 3320
Number of sequences better than 100.0: 29
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 27
Number of HSP's that attempted gapping in prelim test: 3292
Number of HSP's gapped (non-prelim): 54
length of query: 1151
length of database: 14,973,337
effective HSP length: 109
effective length of query: 1042
effective length of database: 8,152,335
effective search space: 8494733070
effective search space used: 8494733070
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: 57 (26.6 bits)