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= 001704
(1024 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 36.2 bits (82), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 53/212 (25%), Positives = 95/212 (44%), Gaps = 34/212 (16%)
Query: 728 LKDDCLSATTTSCPLIESLILMSCQSIGPDGLYSL----RSLQNLTML-----DLSYTFL 778
+ DDCL S + L+L SC+ DGL ++ R+L+ L + D+S +L
Sbjct: 117 VTDDCLELIAKSFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESDVDDVSGHWL 176
Query: 779 TNLEPVFESCLQLKVLKLQACKYLTNTSLESLYKKGSLPALQELDLS-------YGTLCQ 831
++ + S + L + L + ++ ++LE L + P L+ L L+ TL Q
Sbjct: 177 SHFPDTYTSLVSLNISCLAS--EVSFSALERLVTR--CPNLKSLKLNRAVPLEKLATLLQ 232
Query: 832 SA--IEEL--LAYCTHLT-------HVSLNGCGNMHDLNWGASGCQPFESPSVYNSCGIF 880
A +EEL Y + V+L+GC + L+ G P P+VY+ C
Sbjct: 233 RAPQLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLS-GFWDAVPAYLPAVYSVCSRL 291
Query: 881 PHENIHESIDQPNRLLQNLNCVGCPNIRKVFI 912
N+ + Q L++ L CP ++++++
Sbjct: 292 TTLNLSYATVQSYDLVKLL--CQCPKLQRLWV 321
Score = 30.0 bits (66), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 97/442 (21%), Positives = 167/442 (37%), Gaps = 77/442 (17%)
Query: 311 LRNLEALTLG--RGQLGDAFFHALADCSMLKSLNVNDATL----GNGVQEIPINHDQLRR 364
+N + L L G D A C LK L++ ++ + G+ + P + L
Sbjct: 129 FKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESDVDDVSGHWLSHFPDTYTSLVS 188
Query: 365 L-------EITKCRVMRVSIRCPQLEHLSLKRS----NMAQAVLNCPLLHLLD----IAS 409
L E++ + R+ RCP L+ L L R+ +A + P L L A
Sbjct: 189 LNISCLASEVSFSALERLVTRCPNLKSLKLNRAVPLEKLATLLQRAPQLEELGTGGYTAE 248
Query: 410 CHKLSDAAIRLAATSCPQLESLDMSNCSCVSDESLREIALSCANLRILNSSYCPNISLES 469
+ + +A + C +L L S L + C+ L LN SY S +
Sbjct: 249 VRPDVYSGLSVALSGCKELRCL--SGFWDAVPAYLPAVYSVCSRLTTLNLSYATVQSYDL 306
Query: 470 VRL----PMLTVLQLHSCEGITSASMAAI--------------SHSYMLEVLELDNCNLL 511
V+L P L +L + I A + + S +++E L
Sbjct: 307 VKLLCQCPKLQ--RLWVLDYIEDAGLEVLASTCKDLRELRVFPSEPFVMEPNVALTEQGL 364
Query: 512 TSVSLELPRLQNIRLVHCRKFADLNLRAMMLSSIMVSNCAALHRINITSNSLQKLSLQKQ 571
SVS+ P+L+++ L CR+ + L + A +R N+T L + +
Sbjct: 365 VSVSMGCPKLESV-LYFCRQMTNAALITI-----------ARNRPNMTRFRLCIIEPKAP 412
Query: 572 ENLTSLALQC-------QCLQEVDLTDCESLTNSVCEVFSDGGGCPMLKSLVLDNCEGLT 624
+ LT L C L+ LT+ V E E L+
Sbjct: 413 DYLTLEPLDIGFGAIVEHCKDLRRLSLSGLLTDKVFEYIGTYA----------KKMEMLS 462
Query: 625 VVRFCSTSLVSLS--LVGCRAITALELK-CPILEKVCLDGCDHIESASFVPVALQSLNLG 681
V F S + + L GC ++ LE++ CP +K L +E+ + ++ S++ G
Sbjct: 463 VA-FAGDSDLGMHHVLSGCDSLRKLEIRDCPFGDKALLANASKLETMRSLWMSSCSVSFG 521
Query: 682 ICPKLSTLGIEALHMVVLELKG 703
C KL + L++ V++ +G
Sbjct: 522 AC-KLLGQKMPKLNVEVIDERG 542
>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 = 0.099, Method: Compositional matrix adjust.
Identities = 32/113 (28%), Positives = 55/113 (48%), Gaps = 20/113 (17%)
Query: 472 LPMLTVLQLHSCEGITSASMAAISHSYMLEVLELDNCNLLTSVSLELPRLQNIRL----- 526
L L V+Q + G IS + +LEV+E D V LP+L IR+
Sbjct: 39 LTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEAD-------VFSNLPKLHEIRIEKANN 91
Query: 527 ---VHCRKFADL-NLRAMMLSSIMVSNCAALHRINITSNSLQKLSLQKQENLT 575
++ F +L NL+ +++S+ + + +H+I +SLQK+ L Q+N+
Sbjct: 92 LLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKI----HSLQKVLLDIQDNIN 140
>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 = 35.4 bits (80), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 53/221 (23%), Positives = 87/221 (39%), Gaps = 47/221 (21%)
Query: 472 LPMLTVLQLHSCEGITSASMAAISHSYMLEVLELDNCNLLTSVSLELPRLQNIRL----- 526
L L V+Q + G IS + +LEV+E D V LP+L IR+
Sbjct: 39 LTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEAD-------VFSNLPKLHEIRIEKANN 91
Query: 527 ---VHCRKFADL-NLRAMMLSSIMVSNCAALHRINITSNSLQKLSLQKQENL-------- 574
++ F +L NL+ +++S+ + + +H+I +SLQK+ L Q+N+
Sbjct: 92 LLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKI----HSLQKVLLDIQDNINIHTIERN 147
Query: 575 ---------TSLALQCQCLQEVDLTDCESLTNSVCEV-FSDGGGCPMLKSLVLDNCEGLT 624
L L +QE+ +C + E+ SD L + V G
Sbjct: 148 SFVGLSFESVILWLNKNGIQEIH--NCAFNGTQLDELNLSDNNNLEELPNDVFHGASGPV 205
Query: 625 VVRFCSTSLVSLSLVGCRAITALEL-------KCPILEKVC 658
++ T + SL G + L K P LEK+
Sbjct: 206 ILDISRTRIHSLPSYGLENLKKLRARSTYNLKKLPTLEKLV 246
>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 = 35.4 bits (80), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 59/275 (21%), Positives = 117/275 (42%), Gaps = 28/275 (10%)
Query: 227 LTDDLLHMVFSFLDYVDLCRAAIVCRQWRAASAHEDFWRCLNFENRKISVEQFEDVCQRY 286
L D+LL +FS L +L + + VC++W ++ E W+ L+ + + DV R
Sbjct: 12 LPDELLLGIFSCLCLPELLKVSGVCKRWYRLASDESLWQTLDLTGKNLH----PDVTGRL 67
Query: 287 PNATEVNIYGAPAIHL--LVMKAVSLLRNLEALTLGRGQLGDAFFHA-LADCSMLKSLNV 343
+ V + P + + + S R ++ + L + + H L+ CS L++L++
Sbjct: 68 L-SQGVIAFRCPRSFMDQPLAEHFSPFR-VQHMDLSNSVIEVSTLHGILSQCSKLQNLSL 125
Query: 344 NDATLGNGVQEIPINHDQLRRLEITKCR------VMRVSIRCPQLEHLSLKR-SNMAQAV 396
L + + + L RL ++ C + + C +L+ L+L + +
Sbjct: 126 EGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKH 185
Query: 397 LNCPLLHL------LDIASCHK-LSDAAIRLAATSCPQLESLDMSNCSCVSDESLREIAL 449
+ + H+ L+++ K L + + CP L LD+S+ + ++ +E
Sbjct: 186 VQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEF-F 244
Query: 450 SCANLRILNSSYC----PNISLESVRLPMLTVLQL 480
L+ L+ S C P LE +P L LQ+
Sbjct: 245 QLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQV 279
Score = 34.3 bits (77), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 33/138 (23%), Positives = 66/138 (47%), Gaps = 25/138 (18%)
Query: 375 VSIRCPQ-------LEHLS---LKRSNMAQAVLNCPLLHLLDIASCHKLSDAAIRLAATS 424
++ RCP+ EH S ++ +++ +V+ LH + ++ C KL + ++ S
Sbjct: 73 IAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGI-LSQCSKLQNLSLEGLRLS 131
Query: 425 CP---------QLESLDMSNCSCVSDESLREIALSCANLRILNSSYCPNISLESVRLPML 475
P L L++S CS S+ +L+ + SC+ L LN S+C + + + V++ +
Sbjct: 132 DPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAV- 190
Query: 476 TVLQLHSCEGITSASMAA 493
H E IT +++
Sbjct: 191 ----AHVSETITQLNLSG 204
>pdb|1LTX|A Chain A, Structure Of Rab Escort Protein-1 In Complex With Rab
Geranylgeranyl Transferase And Isoprenoid
Length = 567
Score = 34.3 bits (77), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 31/90 (34%), Positives = 45/90 (50%), Gaps = 6/90 (6%)
Query: 762 LRSLQNLTMLDLSYTFLTNLEPVFESCLQLKVLKLQACKYLTNTSLESLYKKGSLPALQE 821
L L +T LDLS+ L L P + L+VL+ ++ +LE++ +LP LQE
Sbjct: 459 LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQA------SDNALENVDGVANLPRLQE 512
Query: 822 LDLSYGTLCQSAIEELLAYCTHLTHVSLNG 851
L L L QSA + L C L ++L G
Sbjct: 513 LLLCNNRLQQSAAIQPLVSCPRLVLLNLQG 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 = 34.3 bits (77), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 31/90 (34%), Positives = 45/90 (50%), Gaps = 6/90 (6%)
Query: 762 LRSLQNLTMLDLSYTFLTNLEPVFESCLQLKVLKLQACKYLTNTSLESLYKKGSLPALQE 821
L L +T LDLS+ L L P + L+VL+ ++ +LE++ +LP LQE
Sbjct: 459 LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQA------SDNALENVDGVANLPRLQE 512
Query: 822 LDLSYGTLCQSAIEELLAYCTHLTHVSLNG 851
L L L QSA + L C L ++L G
Sbjct: 513 LLLCNNRLQQSAAIQPLVSCPRLVLLNLQG 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 = 33.1 bits (74), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 57/257 (22%), Positives = 102/257 (39%), Gaps = 33/257 (12%)
Query: 227 LTDDLLHMVFSFLDYVDLCRAAIVCRQWRAASAHEDFWRCL--------NFENRKISVEQ 278
L D+LL +FS L +L + + VC++W ++ E W+ L + N I V
Sbjct: 12 LPDELLLGIFSCLCLPELLKVSGVCKRWYRLASDESLWQTLDEFRVQHMDLSNSVIEVST 71
Query: 279 FEDVCQRYPNATEVNIYGA----PAIHLLVMKAVSLLRNLEALTLGRGQLGDAFFHALAD 334
+ + +++ G P ++ L + + NL + G + A L+
Sbjct: 72 LHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCS-GFSEF--ALQTLLSS 128
Query: 335 CSMLKSLNVN------DATLGNGVQEIPINHDQLR----RLEITKCRVMRVSIRCPQLEH 384
CS L LN++ + + V + QL R + K + + RCP L H
Sbjct: 129 CSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVH 188
Query: 385 LSLKRSNMA-----QAVLNCPLLHLLDIASCHKLSDAAIRLAATSCPQLESLDMSNCSCV 439
L L S M Q L L ++ C+ + + L P L++L + V
Sbjct: 189 LDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIPETL-LELGEIPTLKTLQV--FGIV 245
Query: 440 SDESLREIALSCANLRI 456
D +L+ + + +L+I
Sbjct: 246 PDGTLQLLKEALPHLQI 262
Score = 32.0 bits (71), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 34/150 (22%), Positives = 66/150 (44%), Gaps = 27/150 (18%)
Query: 344 NDATLGNGVQEIPINHDQLRRLEITKCRVMRVSIRCPQLEHLSLKRSNMAQAVLNCPLLH 403
+D +L + E + H L I + + +C +L++LSL+ ++ ++N
Sbjct: 44 SDESLWQTLDEFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNT---- 99
Query: 404 LLDIASCHKLSDAAIRLAATSCPQLESLDMSNCSCVSDESLREIALSCANLRILNSSYCP 463
LA S L L++S CS S+ +L+ + SC+ L LN S+C
Sbjct: 100 ----------------LAKNS--NLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCF 141
Query: 464 NISLESVRLPMLTVLQLHSCEGITSASMAA 493
+ + + V++ + H E IT +++
Sbjct: 142 DFTEKHVQVAV-----AHVSETITQLNLSG 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 = 1.8, Method: Composition-based stats.
Identities = 21/42 (50%), Positives = 26/42 (61%), Gaps = 3/42 (7%)
Query: 756 PDGLYSLRSLQNLTMLDLSYTFLTNL-EPVFESCLQLKVLKL 796
P G++ L NLT LDLSY L +L E VF+ QLK L+L
Sbjct: 149 PKGVFD--KLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRL 188
>pdb|3BZ5|A Chain A, Functional Domain Of Inlj From Listeria Monocytogenes
Includes A Cysteine Ladder
Length = 457
Score = 31.2 bits (69), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 31/112 (27%), Positives = 49/112 (43%), Gaps = 4/112 (3%)
Query: 542 LSSIMVSNCAALHRINITSNSLQKLSLQKQENLTSLALQCQCLQEVDLTDCESLTNSVCE 601
++ + VS L+R+N +N++ KL L + LT L L E+D+T LT C
Sbjct: 182 ITELDVSQNKLLNRLNCDTNNITKLDLNQNIQLTFLDCSSNKLTEIDVTPLTQLTYFDCS 241
Query: 602 VFS----DGGGCPMLKSLVLDNCEGLTVVRFCSTSLVSLSLVGCRAITALEL 649
V D L +L + L + +T L+ GCR I L++
Sbjct: 242 VNPLTELDVSTLSKLTTLHCIQTDLLEIDLTHNTQLIYFQAEGCRKIKELDV 293
>pdb|2OVP|B Chain B, Structure Of The Skp1-Fbw7 Complex
pdb|2OVQ|B Chain B, Structure Of The Skp1-Fbw7-Cyclinedegc Complex
pdb|2OVR|B Chain B, Structure Of The Skp1-Fbw7-Cyclinedegn Complex
Length = 445
Score = 30.8 bits (68), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 20/39 (51%)
Query: 227 LTDDLLHMVFSFLDYVDLCRAAIVCRQWRAASAHEDFWR 265
L +L V SFL+ DL +AA CR WR + WR
Sbjct: 22 LPKELALYVLSFLEPKDLLQAAQTCRYWRILAEDNLLWR 60
>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 = 30.8 bits (68), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 47/159 (29%), Positives = 73/159 (45%), Gaps = 17/159 (10%)
Query: 314 LEALTLGRGQLGDAF--FHALADCSMLKSLNVNDATL---GNGVQEIPINHDQLRRL--- 365
L +L L R L +L CS LK LNV+ TL G + +N ++ L
Sbjct: 102 LTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSAN 161
Query: 366 EITKCRVMR--VSIRCPQLEHLSLKRSNMAQ--AVLNCPLLHLLDIASCHKLSDAAIRLA 421
I+ V+ +S C +L+HL++ + ++ V C L LD++S + S L
Sbjct: 162 SISGANVVGWVLSDGCGELKHLAISGNKISGDVDVSRCVNLEFLDVSS-NNFSTGIPFLG 220
Query: 422 ATSCPQLESLDMSNCSCVSDESLREIALSCANLRILNSS 460
C L+ LD+S D S R I+ +C L++LN S
Sbjct: 221 --DCSALQHLDISGNKLSGDFS-RAIS-TCTELKLLNIS 255
>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 = 30.4 bits (67), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 42/140 (30%), Positives = 67/140 (47%), Gaps = 15/140 (10%)
Query: 331 ALADCSMLKSLNVNDATL---GNGVQEIPINHDQLRRL---EITKCRVMR--VSIRCPQL 382
+L CS LK LNV+ TL G + +N ++ L I+ V+ +S C +L
Sbjct: 118 SLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGCGEL 177
Query: 383 EHLSLKRSNMAQ--AVLNCPLLHLLDIASCHKLSDAAIRLAATSCPQLESLDMSNCSCVS 440
+HL++ + ++ V C L LD++S + S L C L+ LD+S
Sbjct: 178 KHLAISGNKISGDVDVSRCVNLEFLDVSS-NNFSTGIPFLG--DCSALQHLDISGNKLSG 234
Query: 441 DESLREIALSCANLRILNSS 460
D S R I+ +C L++LN S
Sbjct: 235 DFS-RAIS-TCTELKLLNIS 252
>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 = 5.7, Method: Compositional matrix adjust.
Identities = 33/95 (34%), Positives = 45/95 (47%), Gaps = 8/95 (8%)
Query: 756 PDGLYSLRSLQNLTMLDLSYTFLTNLEPV-FESCLQLKVLKLQACKYLTNTSLESLYKKG 814
PD LR NLT LDLS L L P F S L+VL + + SL++ K
Sbjct: 168 PDIFTELR---NLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFF---SLDTFPYK- 220
Query: 815 SLPALQELDLSYGTLCQSAIEELLAYCTHLTHVSL 849
L +LQ LD S + S +EL + + L ++L
Sbjct: 221 CLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNL 255
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 30.0 bits (66), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 46/180 (25%), Positives = 75/180 (41%), Gaps = 15/180 (8%)
Query: 311 LRNLEALTLGRGQLGDAFFHALADCSMLKSLNV--NDATLGNGVQEIPINHDQLRRLEIT 368
L++L+ LT + G+AF + D L+ L++ N + + L+ L+++
Sbjct: 324 LKSLKRLTFTSNKGGNAF--SEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLS 381
Query: 369 KCRVMRVS---IRCPQLEHLSLKRSNMAQ-----AVLNCPLLHLLDIASCHKLSDAAIRL 420
V+ +S + QLEHL + SN+ Q L+ L LDI+ H + A
Sbjct: 382 FNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTH--TRVAFNG 439
Query: 421 AATSCPQLESLDMSNCSCVSDESLREIALSCANLRILNSSYCPNISLESVRLPMLTVLQL 480
LE L M+ S + L +I NL L+ S C L L+ LQ+
Sbjct: 440 IFNGLSSLEVLKMAGNS-FQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQV 498
>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 = 30.0 bits (66), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 21/33 (63%)
Query: 762 LRSLQNLTMLDLSYTFLTNLEPVFESCLQLKVL 794
+++L NL +LDLS+ LT+L SC QLK
Sbjct: 266 IKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYF 298
>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 = 30.0 bits (66), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 33/95 (34%), Positives = 45/95 (47%), Gaps = 8/95 (8%)
Query: 756 PDGLYSLRSLQNLTMLDLSYTFLTNLEPV-FESCLQLKVLKLQACKYLTNTSLESLYKKG 814
PD LR NLT LDLS L L P F S L+VL + + SL++ K
Sbjct: 487 PDIFTELR---NLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFF---SLDTFPYK- 539
Query: 815 SLPALQELDLSYGTLCQSAIEELLAYCTHLTHVSL 849
L +LQ LD S + S +EL + + L ++L
Sbjct: 540 CLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNL 574
>pdb|1P22|A Chain A, Structure Of A Beta-Trcp1-Skp1-Beta-Catenin Complex:
Destruction Motif Binding And Lysine Specificity On The
Scfbeta-Trcp1 Ubiquitin Ligase
Length = 435
Score = 30.0 bits (66), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 21/39 (53%)
Query: 229 DDLLHMVFSFLDYVDLCRAAIVCRQWRAASAHEDFWRCL 267
D + + S+LD LC A +VC++W ++ W+ L
Sbjct: 20 DHIAENILSYLDAKSLCAAELVCKEWYRVTSDGMLWKKL 58
>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 = 30.0 bits (66), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 30/138 (21%), Positives = 57/138 (41%), Gaps = 14/138 (10%)
Query: 342 NVNDATLGNGVQEIPINHDQLRR------------LEITKCRVMRVSIRCPQLEHLSLKR 389
+ D L NGV+ + I +LRR L ++ ++R L ++
Sbjct: 418 RITDLPLDNGVRSLLIGCKKLRRFAFYLRQGGLTDLGLSYIGQYSPNVRWMLLGYVGESD 477
Query: 390 SNMAQAVLNCPLLHLLDIASCHKLSDAAIRLAATSCPQLESLDMSNC-SCVSDESLREIA 448
+ + CP L L++ C S+ AI A T P L L + + ++ + L ++A
Sbjct: 478 EGLMEFSRGCPNLQKLEMRGCC-FSERAIAAAVTKLPSLRYLWVQGYRASMTGQDLMQMA 536
Query: 449 LSCANLRILNSSYCPNIS 466
N+ ++ S P ++
Sbjct: 537 RPYWNIELIPSRRVPEVN 554
>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 = 29.6 bits (65), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 54/220 (24%), Positives = 92/220 (41%), Gaps = 17/220 (7%)
Query: 311 LRNLEALTLGRGQLGDAFFHALADCSMLKSLNV--NDATLGNGVQEIPINHDQLRRLEIT 368
L++L+ LT + G+AF + D L+ L++ N + + L+ L+++
Sbjct: 324 LKSLKRLTFTSNKGGNAF--SEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLS 381
Query: 369 KCRVMRVS---IRCPQLEHLSLKRSNMAQ-----AVLNCPLLHLLDIASCHKLSDAAIRL 420
V+ +S + QLEHL + SN+ Q L+ L LDI+ H + A
Sbjct: 382 FNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTH--TRVAFNG 439
Query: 421 AATSCPQLESLDMSNCSCVSDESLREIALSCANLRILNSSYCPNISLESVRLPMLTVLQL 480
LE L M+ S + L +I NL L+ S C L L+ LQ+
Sbjct: 440 IFNGLSSLEVLKMAGNS-FQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQV 498
Query: 481 HSCEGITSASMAAISHSYM--LEVLELDNCNLLTSVSLEL 518
+ S+ + + L+VL+ +++TS EL
Sbjct: 499 LNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQEL 538
Score = 29.6 bits (65), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 33/95 (34%), Positives = 45/95 (47%), Gaps = 8/95 (8%)
Query: 756 PDGLYSLRSLQNLTMLDLSYTFLTNLEPV-FESCLQLKVLKLQACKYLTNTSLESLYKKG 814
PD LR NLT LDLS L L P F S L+VL + + SL++ K
Sbjct: 463 PDIFTELR---NLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFF---SLDTFPYK- 515
Query: 815 SLPALQELDLSYGTLCQSAIEELLAYCTHLTHVSL 849
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
0.321 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: 25,635,627
Number of Sequences: 62578
Number of extensions: 937343
Number of successful extensions: 1981
Number of sequences better than 100.0: 45
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 37
Number of HSP's that attempted gapping in prelim test: 1893
Number of HSP's gapped (non-prelim): 105
length of query: 1024
length of database: 14,973,337
effective HSP length: 109
effective length of query: 915
effective length of database: 8,152,335
effective search space: 7459386525
effective search space used: 7459386525
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: 56 (26.2 bits)