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= 005004
(720 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 36.6 bits (83), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 53/221 (23%), Positives = 87/221 (39%), Gaps = 47/221 (21%)
Query: 168 LPMLTVLQLHSCEGITSASMAAISHSYMLEVLELDNCNLLTSVSLELPRLQNIRL----- 222
L L V+Q + G IS + +LEV+E D V LP+L IR+
Sbjct: 39 LTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEAD-------VFSNLPKLHEIRIEKANN 91
Query: 223 ---VHCRKFADL-NLRAMMLSSIMVSNCAALHRINITSNSLQKLSLQKQENLT------- 271
++ F +L NL+ +++S+ + + +H+I +SLQK+ L Q+N+
Sbjct: 92 LLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKI----HSLQKVLLDIQDNINIHTIERN 147
Query: 272 ----------SLALQCQCLQEVDLTDCESLTNSVCEV-FSDGGGCPMLKSLVLDNCEGLT 320
L L +QE+ +C + E+ SD L + V G
Sbjct: 148 SFVGLSFESVILWLNKNGIQEIH--NCAFNGTQLDELNLSDNNNLEELPNDVFHGASGPV 205
Query: 321 VVRFCSTSLVSLSLVGCRAITALEL-------KCPILEKVC 354
++ T + SL G + L K P LEK+
Sbjct: 206 ILDISRTRIHSLPSYGLENLKKLRARSTYNLKKLPTLEKLV 246
>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 = 36.2 bits (82), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 32/113 (28%), Positives = 55/113 (48%), Gaps = 20/113 (17%)
Query: 168 LPMLTVLQLHSCEGITSASMAAISHSYMLEVLELDNCNLLTSVSLELPRLQNIRL----- 222
L L V+Q + G IS + +LEV+E D V LP+L IR+
Sbjct: 39 LTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEAD-------VFSNLPKLHEIRIEKANN 91
Query: 223 ---VHCRKFADL-NLRAMMLSSIMVSNCAALHRINITSNSLQKLSLQKQENLT 271
++ F +L NL+ +++S+ + + +H+I +SLQK+ L Q+N+
Sbjct: 92 LLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKI----HSLQKVLLDIQDNIN 140
>pdb|1FQV|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|E Chain E, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|G Chain G, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|I Chain I, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|K Chain K, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|M Chain M, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|O Chain O, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|2ASS|B Chain B, Crystal Structure Of The Skp1-Skp2-Cks1 Complex
pdb|2AST|B Chain B, Crystal Structure Of Skp1-Skp2-Cks1 In Complex With A P27
Peptide
Length = 336
Score = 34.3 bits (77), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 33/138 (23%), Positives = 66/138 (47%), Gaps = 25/138 (18%)
Query: 71 VSIRCPQ-------LEHLS---LKRSNMAQAVLNCPLLHLLDIASCHKLSDAAIRLAATS 120
++ RCP+ EH S ++ +++ +V+ LH + ++ C KL + ++ S
Sbjct: 73 IAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGI-LSQCSKLQNLSLEGLRLS 131
Query: 121 CP---------QLESLDMSNCSCVSDESLREIALSCANLRILNSSYCPNISLESVRLPML 171
P L L++S CS S+ +L+ + SC+ L LN S+C + + + V++ +
Sbjct: 132 DPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAV- 190
Query: 172 TVLQLHSCEGITSASMAA 189
H E IT +++
Sbjct: 191 ----AHVSETITQLNLSG 204
>pdb|2P1M|B Chain B, Tir1-ask1 Complex Structure
pdb|2P1N|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiqutin Ligase
pdb|2P1N|E Chain E, Mechanism Of Auxin Perception By The Tir1 Ubiqutin Ligase
pdb|2P1O|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|2P1P|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|2P1Q|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|3C6N|B Chain B, Small Molecule Agonists And Antagonists Of F-Box Protein-
Substrate Interactions In Auxin Perception And Signaling
pdb|3C6O|B Chain B, Small Molecule Agonists And Antagonists Of F-Box
Protein-Substrate Interactions In Auxin Perception And
Signaling
pdb|3C6P|B Chain B, Small Molecule Agonists And Antagonists Of F-Box Protein-
Substrate Interactions In Auxin Perception And Signaling
Length = 594
Score = 33.9 bits (76), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 53/210 (25%), Positives = 94/210 (44%), Gaps = 34/210 (16%)
Query: 426 DDCLSATTTSCPLIESLILMSCQSIGPDGLYSL----RSLQNLTML-----DLSYTFLTN 476
DDCL S + L+L SC+ DGL ++ R+L+ L + D+S +L++
Sbjct: 119 DDCLELIAKSFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESDVDDVSGHWLSH 178
Query: 477 LEPVFESCLQLKVLKLQACKYLTNTSLESLYKKGSLPALQELDLSY-------GTLCQSA 529
+ S + L + L + ++ ++LE L + P L+ L L+ TL Q A
Sbjct: 179 FPDTYTSLVSLNISCLAS--EVSFSALERLVTR--CPNLKSLKLNRAVPLEKLATLLQRA 234
Query: 530 --IEEL--LAYCTHLT-------HVSLNGCGNMHDLNWGASGCQPFESPSVYNSCGIFPH 578
+EEL Y + V+L+GC + L+ G P P+VY+ C
Sbjct: 235 PQLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLS-GFWDAVPAYLPAVYSVCSRLTT 293
Query: 579 ENIHESIDQPNRLLQNLNCVGCPNIRKVFI 608
N+ + Q L++ L CP ++++++
Sbjct: 294 LNLSYATVQSYDLVKLL--CQCPKLQRLWV 321
>pdb|1LTX|A Chain A, Structure Of Rab Escort Protein-1 In Complex With Rab
Geranylgeranyl Transferase And Isoprenoid
Length = 567
Score = 33.1 bits (74), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 29/84 (34%), Positives = 43/84 (51%), Gaps = 6/84 (7%)
Query: 464 LTMLDLSYTFLTNLEPVFESCLQLKVLKLQACKYLTNTSLESLYKKGSLPALQELDLSYG 523
+T LDLS+ L L P + L+VL+ ++ +LE++ +LP LQEL L
Sbjct: 465 VTHLDLSHNRLRALPPALAALRCLEVLQA------SDNALENVDGVANLPRLQELLLCNN 518
Query: 524 TLCQSAIEELLAYCTHLTHVSLNG 547
L QSA + L C L ++L G
Sbjct: 519 RLQQSAAIQPLVSCPRLVLLNLQG 542
>pdb|1DCE|A Chain A, Crystal Structure Of Rab Geranylgeranyltransferase From
Rat Brain
pdb|1DCE|C Chain C, Crystal Structure Of Rab Geranylgeranyltransferase From
Rat Brain
Length = 567
Score = 33.1 bits (74), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 29/84 (34%), Positives = 43/84 (51%), Gaps = 6/84 (7%)
Query: 464 LTMLDLSYTFLTNLEPVFESCLQLKVLKLQACKYLTNTSLESLYKKGSLPALQELDLSYG 523
+T LDLS+ L L P + L+VL+ ++ +LE++ +LP LQEL L
Sbjct: 465 VTHLDLSHNRLRALPPALAALRCLEVLQA------SDNALENVDGVANLPRLQELLLCNN 518
Query: 524 TLCQSAIEELLAYCTHLTHVSLNG 547
L QSA + L C L ++L G
Sbjct: 519 RLQQSAAIQPLVSCPRLVLLNLQG 542
>pdb|1FS2|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FS2|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
Length = 272
Score = 32.3 bits (72), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 23/97 (23%), Positives = 49/97 (50%), Gaps = 4/97 (4%)
Query: 40 NDATLGNGVQEIPINHDQLRRLEITKCRVMRVSIRCPQLEHLSLKRSNMAQAVLNC---- 95
+D +L + E + H L I + + +C +L++LSL+ ++ ++N
Sbjct: 44 SDESLWQTLDEFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKN 103
Query: 96 PLLHLLDIASCHKLSDAAIRLAATSCPQLESLDMSNC 132
L L+++ C S+ A++ +SC +L+ L++S C
Sbjct: 104 SNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWC 140
Score = 32.3 bits (72), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 28/121 (23%), Positives = 59/121 (48%), Gaps = 15/121 (12%)
Query: 78 LEHLSLKRSNMAQAVLNCPLLHLLDIASCHKLSDAAIRLAATSCP---------QLESLD 128
L+ ++ +++ +V+ LH + ++ C KL + ++ S P L L+
Sbjct: 52 LDEFRVQHMDLSNSVIEVSTLHGI-LSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLN 110
Query: 129 MSNCSCVSDESLREIALSCANLRILNSSYCPNISLESVRLPMLTVLQLHSCEGITSASMA 188
+S CS S+ +L+ + SC+ L LN S+C + + + V++ + H E IT +++
Sbjct: 111 LSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAV-----AHVSETITQLNLS 165
Query: 189 A 189
Sbjct: 166 G 166
>pdb|3RFS|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
pdb|3RFS|B Chain B, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 272
Score = 32.0 bits (71), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 21/42 (50%), Positives = 26/42 (61%), Gaps = 3/42 (7%)
Query: 452 PDGLYSLRSLQNLTMLDLSYTFLTNL-EPVFESCLQLKVLKL 492
P G++ L NLT LDLSY L +L E VF+ QLK L+L
Sbjct: 149 PKGVFD--KLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRL 188
>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 = 3.7, Method: Compositional matrix adjust.
Identities = 33/95 (34%), Positives = 45/95 (47%), Gaps = 8/95 (8%)
Query: 452 PDGLYSLRSLQNLTMLDLSYTFLTNLEPV-FESCLQLKVLKLQACKYLTNTSLESLYKKG 510
PD LR NLT LDLS L L P F S L+VL + + SL++ K
Sbjct: 168 PDIFTELR---NLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFF---SLDTFPYK- 220
Query: 511 SLPALQELDLSYGTLCQSAIEELLAYCTHLTHVSL 545
L +LQ LD S + S +EL + + L ++L
Sbjct: 221 CLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNL 255
>pdb|3BZ5|A Chain A, Functional Domain Of Inlj From Listeria Monocytogenes
Includes A Cysteine Ladder
Length = 457
Score = 30.4 bits (67), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 31/112 (27%), Positives = 49/112 (43%), Gaps = 4/112 (3%)
Query: 238 LSSIMVSNCAALHRINITSNSLQKLSLQKQENLTSLALQCQCLQEVDLTDCESLTNSVCE 297
++ + VS L+R+N +N++ KL L + LT L L E+D+T LT C
Sbjct: 182 ITELDVSQNKLLNRLNCDTNNITKLDLNQNIQLTFLDCSSNKLTEIDVTPLTQLTYFDCS 241
Query: 298 VFS----DGGGCPMLKSLVLDNCEGLTVVRFCSTSLVSLSLVGCRAITALEL 345
V D L +L + L + +T L+ GCR I L++
Sbjct: 242 VNPLTELDVSTLSKLTTLHCIQTDLLEIDLTHNTQLIYFQAEGCRKIKELDV 293
>pdb|3OGK|B Chain B, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|D Chain D, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|F Chain F, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|H Chain H, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|J Chain J, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|L Chain L, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|N Chain N, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|P Chain P, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGL|B Chain B, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|D Chain D, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|F Chain F, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|H Chain H, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|J Chain J, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|L Chain L, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|N Chain N, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|P Chain P, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGM|B Chain B, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|D Chain D, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|F Chain F, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|H Chain H, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|J Chain J, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|L Chain L, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|N Chain N, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|P Chain P, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
Length = 592
Score = 29.6 bits (65), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 30/138 (21%), Positives = 57/138 (41%), Gaps = 14/138 (10%)
Query: 38 NVNDATLGNGVQEIPINHDQLRR------------LEITKCRVMRVSIRCPQLEHLSLKR 85
+ D L NGV+ + I +LRR L ++ ++R L ++
Sbjct: 418 RITDLPLDNGVRSLLIGCKKLRRFAFYLRQGGLTDLGLSYIGQYSPNVRWMLLGYVGESD 477
Query: 86 SNMAQAVLNCPLLHLLDIASCHKLSDAAIRLAATSCPQLESLDMSNC-SCVSDESLREIA 144
+ + CP L L++ C S+ AI A T P L L + + ++ + L ++A
Sbjct: 478 EGLMEFSRGCPNLQKLEMRGCC-FSERAIAAAVTKLPSLRYLWVQGYRASMTGQDLMQMA 536
Query: 145 LSCANLRILNSSYCPNIS 162
N+ ++ S P ++
Sbjct: 537 RPYWNIELIPSRRVPEVN 554
>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 = 29.6 bits (65), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 21/33 (63%)
Query: 458 LRSLQNLTMLDLSYTFLTNLEPVFESCLQLKVL 490
+++L NL +LDLS+ LT+L SC QLK
Sbjct: 266 IKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYF 298
>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 = 29.6 bits (65), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 42/140 (30%), Positives = 67/140 (47%), Gaps = 15/140 (10%)
Query: 27 ALADCSMLKSLNVNDATL---GNGVQEIPINHDQLRRL---EITKCRVMR--VSIRCPQL 78
+L CS LK LNV+ TL G + +N ++ L I+ V+ +S C +L
Sbjct: 121 SLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGCGEL 180
Query: 79 EHLSLKRSNMAQ--AVLNCPLLHLLDIASCHKLSDAAIRLAATSCPQLESLDMSNCSCVS 136
+HL++ + ++ V C L LD++S + S L C L+ LD+S
Sbjct: 181 KHLAISGNKISGDVDVSRCVNLEFLDVSS-NNFSTGIPFLG--DCSALQHLDISGNKLSG 237
Query: 137 DESLREIALSCANLRILNSS 156
D S R I+ +C L++LN S
Sbjct: 238 DFS-RAIS-TCTELKLLNIS 255
>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 = 29.6 bits (65), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 33/95 (34%), Positives = 45/95 (47%), Gaps = 8/95 (8%)
Query: 452 PDGLYSLRSLQNLTMLDLSYTFLTNLEPV-FESCLQLKVLKLQACKYLTNTSLESLYKKG 510
PD LR NLT LDLS L L P F S L+VL + + SL++ K
Sbjct: 487 PDIFTELR---NLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFF---SLDTFPYK- 539
Query: 511 SLPALQELDLSYGTLCQSAIEELLAYCTHLTHVSL 545
L +LQ LD S + S +EL + + L ++L
Sbjct: 540 CLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNL 574
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 29.3 bits (64), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 46/180 (25%), Positives = 75/180 (41%), Gaps = 15/180 (8%)
Query: 7 LRNLEALTLGRGQLGDAFFHALADCSMLKSLNV--NDATLGNGVQEIPINHDQLRRLEIT 64
L++L+ LT + G+AF + D L+ L++ N + + L+ L+++
Sbjct: 324 LKSLKRLTFTSNKGGNAF--SEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLS 381
Query: 65 KCRVMRVS---IRCPQLEHLSLKRSNMAQ-----AVLNCPLLHLLDIASCHKLSDAAIRL 116
V+ +S + QLEHL + SN+ Q L+ L LDI+ H + A
Sbjct: 382 FNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTH--TRVAFNG 439
Query: 117 AATSCPQLESLDMSNCSCVSDESLREIALSCANLRILNSSYCPNISLESVRLPMLTVLQL 176
LE L M+ S + L +I NL L+ S C L L+ LQ+
Sbjct: 440 IFNGLSSLEVLKMAGNS-FQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQV 498
>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 = 29.3 bits (64), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 42/140 (30%), Positives = 67/140 (47%), Gaps = 15/140 (10%)
Query: 27 ALADCSMLKSLNVNDATL---GNGVQEIPINHDQLRRL---EITKCRVMR--VSIRCPQL 78
+L CS LK LNV+ TL G + +N ++ L I+ V+ +S C +L
Sbjct: 118 SLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGCGEL 177
Query: 79 EHLSLKRSNMAQ--AVLNCPLLHLLDIASCHKLSDAAIRLAATSCPQLESLDMSNCSCVS 136
+HL++ + ++ V C L LD++S + S L C L+ LD+S
Sbjct: 178 KHLAISGNKISGDVDVSRCVNLEFLDVSS-NNFSTGIPFLG--DCSALQHLDISGNKLSG 234
Query: 137 DESLREIALSCANLRILNSS 156
D S R I+ +C L++LN S
Sbjct: 235 DFS-RAIS-TCTELKLLNIS 252
>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 = 7.8, Method: Compositional matrix adjust.
Identities = 54/223 (24%), Positives = 92/223 (41%), Gaps = 17/223 (7%)
Query: 7 LRNLEALTLGRGQLGDAFFHALADCSMLKSLNV--NDATLGNGVQEIPINHDQLRRLEIT 64
L++L+ LT + G+AF + D L+ L++ N + + L+ L+++
Sbjct: 324 LKSLKRLTFTSNKGGNAF--SEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLS 381
Query: 65 KCRVMRVS---IRCPQLEHLSLKRSNMAQ-----AVLNCPLLHLLDIASCHKLSDAAIRL 116
V+ +S + QLEHL + SN+ Q L+ L LDI+ H + A
Sbjct: 382 FNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTH--TRVAFNG 439
Query: 117 AATSCPQLESLDMSNCSCVSDESLREIALSCANLRILNSSYCPNISLESVRLPMLTVLQL 176
LE L M+ S + L +I NL L+ S C L L+ LQ+
Sbjct: 440 IFNGLSSLEVLKMAGNS-FQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQV 498
Query: 177 HSCEGITSASMAAISHSYM--LEVLELDNCNLLTSVSLELPRL 217
+ S+ + + L+VL+ +++TS EL
Sbjct: 499 LNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHF 541
Score = 29.3 bits (64), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 33/95 (34%), Positives = 45/95 (47%), Gaps = 8/95 (8%)
Query: 452 PDGLYSLRSLQNLTMLDLSYTFLTNLEPV-FESCLQLKVLKLQACKYLTNTSLESLYKKG 510
PD LR NLT LDLS L L P F S L+VL + + SL++ K
Sbjct: 463 PDIFTELR---NLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFF---SLDTFPYK- 515
Query: 511 SLPALQELDLSYGTLCQSAIEELLAYCTHLTHVSL 545
L +LQ LD S + S +EL + + L ++L
Sbjct: 516 CLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNL 550
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
0.322 0.134 0.403
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,081,863
Number of Sequences: 62578
Number of extensions: 606383
Number of successful extensions: 1363
Number of sequences better than 100.0: 42
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 35
Number of HSP's that attempted gapping in prelim test: 1280
Number of HSP's gapped (non-prelim): 99
length of query: 720
length of database: 14,973,337
effective HSP length: 106
effective length of query: 614
effective length of database: 8,340,069
effective search space: 5120802366
effective search space used: 5120802366
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 55 (25.8 bits)