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= 030065
(183 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 67.4 bits (163), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 35/97 (36%), Positives = 55/97 (56%), Gaps = 4/97 (4%)
Query: 68 LNLSDMGLGGTIPLHLGNLSFLVSLDVAHNNFHGHLPNELGQLRRLRFIRFGFNKLSGSI 127
L++S L G IP +G++ +L L++ HN+ G +P+E+G LR L + NKL G I
Sbjct: 637 LDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRI 696
Query: 128 PTWIGVLSKLQTLRLYNNSFTGPIPNSLLNLSKLEVF 164
P + L+ L + L NN+ +GPIP + + E F
Sbjct: 697 PQAMSALTMLTEIDLSNNNLSGPIP----EMGQFETF 729
Score = 63.2 bits (152), Expect = 8e-11, Method: Compositional matrix adjust.
Identities = 42/120 (35%), Positives = 58/120 (48%)
Query: 58 CGSRHQRVTALNLSDMGLGGTIPLHLGNLSFLVSLDVAHNNFHGHLPNELGQLRRLRFIR 117
C + + L L + G G IP L N S LVSL ++ N G +P+ LG L +LR ++
Sbjct: 389 CQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLK 448
Query: 118 FGFNKLSGSIPTWIGVLSKLQTLRLYNNSFTGPIPNSLLNLSKLEVFDAIYNVIDGTTTK 177
N L G IP + + L+TL L N TG IP+ L N + L N + G K
Sbjct: 449 LWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPK 508
Score = 63.2 bits (152), Expect = 8e-11, Method: Compositional matrix adjust.
Identities = 39/106 (36%), Positives = 53/106 (50%)
Query: 75 LGGTIPLHLGNLSFLVSLDVAHNNFHGHLPNELGQLRRLRFIRFGFNKLSGSIPTWIGVL 134
L G IP L + L +L + N+ G +P+ L L +I N+L+G IP WIG L
Sbjct: 454 LEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRL 513
Query: 135 SKLQTLRLYNNSFTGPIPNSLLNLSKLEVFDAIYNVIDGTTTKMTF 180
L L+L NNSF+G IP L + L D N+ +GT F
Sbjct: 514 ENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMF 559
Score = 56.2 bits (134), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 36/108 (33%), Positives = 54/108 (50%), Gaps = 1/108 (0%)
Query: 76 GGTIPLHLGNLSFLVSLDVAHNNFHGHLPNELGQLRRLRFIRFGFNKLSGSIPTWIGVLS 135
G T P N S + LD+++N G++P E+G + L + G N +SGSIP +G L
Sbjct: 622 GHTSPTFDNNGSMMF-LDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLR 680
Query: 136 KLQTLRLYNNSFTGPIPNSLLNLSKLEVFDAIYNVIDGTTTKMTFIDT 183
L L L +N G IP ++ L+ L D N + G +M +T
Sbjct: 681 GLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPEMGQFET 728
Score = 50.4 bits (119), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 45/138 (32%), Positives = 63/138 (45%), Gaps = 28/138 (20%)
Query: 65 VTALNLSDMGLGGTIPLHLGNLSFLVSLDVAHNNFHGHLP-NELGQLRRLRFIRFGFNKL 123
+T L+LS G +P G+ S L SL ++ NNF G LP + L ++R L+ + FN+
Sbjct: 296 LTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEF 355
Query: 124 SGSIPTWIGVLSK---------------------------LQTLRLYNNSFTGPIPNSLL 156
SG +P + LS LQ L L NN FTG IP +L
Sbjct: 356 SGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLS 415
Query: 157 NLSKLEVFDAIYNVIDGT 174
N S+L +N + GT
Sbjct: 416 NCSELVSLHLSFNYLSGT 433
Score = 44.7 bits (104), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 28/85 (32%), Positives = 42/85 (49%)
Query: 75 LGGTIPLHLGNLSFLVSLDVAHNNFHGHLPNELGQLRRLRFIRFGFNKLSGSIPTWIGVL 134
L G IP L N + L + +++N G +P +G+L L ++ N SG+IP +G
Sbjct: 478 LTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDC 537
Query: 135 SKLQTLRLYNNSFTGPIPNSLLNLS 159
L L L N F G IP ++ S
Sbjct: 538 RSLIWLDLNTNLFNGTIPAAMFKQS 562
Score = 43.1 bits (100), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 33/104 (31%), Positives = 50/104 (48%), Gaps = 10/104 (9%)
Query: 85 NLSFLVSLDVAHNNFHGHLPNELGQLRRLRFIRFGFNKLSGSIPTWIGVLSKLQTLRLYN 144
NL FL DV+ NNF +P LG L+ + NKLSG I ++L+ L + +
Sbjct: 201 NLEFL---DVSSNNFSTGIP-FLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISS 256
Query: 145 NSFTGPIPN------SLLNLSKLEVFDAIYNVIDGTTTKMTFID 182
N F GPIP L+L++ + I + + G +T +D
Sbjct: 257 NQFVGPIPPLPLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLD 300
Score = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 36/75 (48%)
Query: 99 FHGHLPNELGQLRRLRFIRFGFNKLSGSIPTWIGVLSKLQTLRLYNNSFTGPIPNSLLNL 158
+ GH + F+ +N LSG IP IG + L L L +N +G IP+ + +L
Sbjct: 620 YGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDL 679
Query: 159 SKLEVFDAIYNVIDG 173
L + D N +DG
Sbjct: 680 RGLNILDLSSNKLDG 694
>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 = 67.0 bits (162), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 35/97 (36%), Positives = 55/97 (56%), Gaps = 4/97 (4%)
Query: 68 LNLSDMGLGGTIPLHLGNLSFLVSLDVAHNNFHGHLPNELGQLRRLRFIRFGFNKLSGSI 127
L++S L G IP +G++ +L L++ HN+ G +P+E+G LR L + NKL G I
Sbjct: 634 LDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRI 693
Query: 128 PTWIGVLSKLQTLRLYNNSFTGPIPNSLLNLSKLEVF 164
P + L+ L + L NN+ +GPIP + + E F
Sbjct: 694 PQAMSALTMLTEIDLSNNNLSGPIP----EMGQFETF 726
Score = 63.2 bits (152), Expect = 9e-11, Method: Compositional matrix adjust.
Identities = 39/106 (36%), Positives = 53/106 (50%)
Query: 75 LGGTIPLHLGNLSFLVSLDVAHNNFHGHLPNELGQLRRLRFIRFGFNKLSGSIPTWIGVL 134
L G IP L + L +L + N+ G +P+ L L +I N+L+G IP WIG L
Sbjct: 451 LEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRL 510
Query: 135 SKLQTLRLYNNSFTGPIPNSLLNLSKLEVFDAIYNVIDGTTTKMTF 180
L L+L NNSF+G IP L + L D N+ +GT F
Sbjct: 511 ENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMF 556
Score = 63.2 bits (152), Expect = 9e-11, Method: Compositional matrix adjust.
Identities = 42/120 (35%), Positives = 58/120 (48%)
Query: 58 CGSRHQRVTALNLSDMGLGGTIPLHLGNLSFLVSLDVAHNNFHGHLPNELGQLRRLRFIR 117
C + + L L + G G IP L N S LVSL ++ N G +P+ LG L +LR ++
Sbjct: 386 CQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLK 445
Query: 118 FGFNKLSGSIPTWIGVLSKLQTLRLYNNSFTGPIPNSLLNLSKLEVFDAIYNVIDGTTTK 177
N L G IP + + L+TL L N TG IP+ L N + L N + G K
Sbjct: 446 LWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPK 505
Score = 56.2 bits (134), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 36/108 (33%), Positives = 54/108 (50%), Gaps = 1/108 (0%)
Query: 76 GGTIPLHLGNLSFLVSLDVAHNNFHGHLPNELGQLRRLRFIRFGFNKLSGSIPTWIGVLS 135
G T P N S + LD+++N G++P E+G + L + G N +SGSIP +G L
Sbjct: 619 GHTSPTFDNNGSMMF-LDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLR 677
Query: 136 KLQTLRLYNNSFTGPIPNSLLNLSKLEVFDAIYNVIDGTTTKMTFIDT 183
L L L +N G IP ++ L+ L D N + G +M +T
Sbjct: 678 GLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPEMGQFET 725
Score = 50.4 bits (119), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 45/138 (32%), Positives = 63/138 (45%), Gaps = 28/138 (20%)
Query: 65 VTALNLSDMGLGGTIPLHLGNLSFLVSLDVAHNNFHGHLP-NELGQLRRLRFIRFGFNKL 123
+T L+LS G +P G+ S L SL ++ NNF G LP + L ++R L+ + FN+
Sbjct: 293 LTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEF 352
Query: 124 SGSIPTWIGVLSK---------------------------LQTLRLYNNSFTGPIPNSLL 156
SG +P + LS LQ L L NN FTG IP +L
Sbjct: 353 SGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLS 412
Query: 157 NLSKLEVFDAIYNVIDGT 174
N S+L +N + GT
Sbjct: 413 NCSELVSLHLSFNYLSGT 430
Score = 44.7 bits (104), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 28/85 (32%), Positives = 42/85 (49%)
Query: 75 LGGTIPLHLGNLSFLVSLDVAHNNFHGHLPNELGQLRRLRFIRFGFNKLSGSIPTWIGVL 134
L G IP L N + L + +++N G +P +G+L L ++ N SG+IP +G
Sbjct: 475 LTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDC 534
Query: 135 SKLQTLRLYNNSFTGPIPNSLLNLS 159
L L L N F G IP ++ S
Sbjct: 535 RSLIWLDLNTNLFNGTIPAAMFKQS 559
Score = 43.1 bits (100), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 33/104 (31%), Positives = 50/104 (48%), Gaps = 10/104 (9%)
Query: 85 NLSFLVSLDVAHNNFHGHLPNELGQLRRLRFIRFGFNKLSGSIPTWIGVLSKLQTLRLYN 144
NL FL DV+ NNF +P LG L+ + NKLSG I ++L+ L + +
Sbjct: 198 NLEFL---DVSSNNFSTGIP-FLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISS 253
Query: 145 NSFTGPIPN------SLLNLSKLEVFDAIYNVIDGTTTKMTFID 182
N F GPIP L+L++ + I + + G +T +D
Sbjct: 254 NQFVGPIPPLPLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLD 297
Score = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 36/75 (48%)
Query: 99 FHGHLPNELGQLRRLRFIRFGFNKLSGSIPTWIGVLSKLQTLRLYNNSFTGPIPNSLLNL 158
+ GH + F+ +N LSG IP IG + L L L +N +G IP+ + +L
Sbjct: 617 YGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDL 676
Query: 159 SKLEVFDAIYNVIDG 173
L + D N +DG
Sbjct: 677 RGLNILDLSSNKLDG 691
>pdb|1OGQ|A Chain A, The Crystal Structure Of Pgip (Polygalacturonase
Inhibiting Protein), A Leucine Rich Repeat Protein
Involved In Plant Defense
Length = 313
Score = 54.3 bits (129), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 37/103 (35%), Positives = 54/103 (52%), Gaps = 2/103 (1%)
Query: 75 LGGTIPLHLGNLSFLVSLDVAHNNFHGHLPNELGQLRRLRFIRFGFNKLSGSIPTWIGVL 134
+ G IP L + LV+LD ++N G LP + L L I F N++SG+IP G
Sbjct: 113 VSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSF 172
Query: 135 SKLQT-LRLYNNSFTGPIPNSLLNLSKLEVFDAIYNVIDGTTT 176
SKL T + + N TG IP + NL+ L D N+++G +
Sbjct: 173 SKLFTSMTISRNRLTGKIPPTFANLN-LAFVDLSRNMLEGDAS 214
Score = 54.3 bits (129), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 47/171 (27%), Positives = 75/171 (43%), Gaps = 33/171 (19%)
Query: 22 DQSALLAFKARVVDYRSDLTNNWSISYPIC--SWVGISCGSRHQ--RVTALNLSDMGLG- 76
D+ ALL K + + + ++W + C +W+G+ C + Q RV L+LS + L
Sbjct: 7 DKQALLQIKKDLGNPTT--LSSWLPTTDCCNRTWLGVLCDTDTQTYRVNNLDLSGLNLPK 64
Query: 77 --------------------------GTIPLHLGNLSFLVSLDVAHNNFHGHLPNELGQL 110
G IP + L+ L L + H N G +P+ L Q+
Sbjct: 65 PYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQI 124
Query: 111 RRLRFIRFGFNKLSGSIPTWIGVLSKLQTLRLYNNSFTGPIPNSLLNLSKL 161
+ L + F +N LSG++P I L L + N +G IP+S + SKL
Sbjct: 125 KTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKL 175
Score = 35.4 bits (80), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 24/65 (36%), Positives = 36/65 (55%), Gaps = 2/65 (3%)
Query: 63 QRVTALNLSDMGLGGTIPLHLGNLSFLVSLDVAHNNFHGHLPNELGQLRRLRFIRFGFNK 122
+ + L+L + + GT+P L L FL SL+V+ NN G +P + G L+R + NK
Sbjct: 244 KNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIP-QGGNLQRFDVSAYANNK 302
Query: 123 -LSGS 126
L GS
Sbjct: 303 CLCGS 307
Score = 33.5 bits (75), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 22/40 (55%)
Query: 89 LVSLDVAHNNFHGHLPNELGQLRRLRFIRFGFNKLSGSIP 128
L LD+ +N +G LP L QL+ L + FN L G IP
Sbjct: 246 LNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIP 285
>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 = 35.8 bits (81), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 24/67 (35%), Positives = 36/67 (53%), Gaps = 2/67 (2%)
Query: 79 IPLHLGNLSFLVSLDVAHNNFHGHLPNELGQLRRLRFIRFGFNKLSGSIPTWIGVLSKLQ 138
+P + NLS L LD++HN LP ELG +L++ F F+ + ++P G L LQ
Sbjct: 262 LPAEIKNLSNLRVLDLSHNRLTS-LPAELGSCFQLKYFYF-FDNMVTTLPWEFGNLCNLQ 319
Query: 139 TLRLYNN 145
L + N
Sbjct: 320 FLGVEGN 326
>pdb|1W8A|A Chain A, Third Lrr Domain Of Drosophila Slit
Length = 192
Score = 35.8 bits (81), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 41/80 (51%), Gaps = 2/80 (2%)
Query: 83 LGNLSFLVSLDVAHNNFHGHLPNELGQLRRLRFIRFGFNKLSG-SIPTWIGVLSKLQTLR 141
G L LV L++ N G PN ++ ++ G NK+ S ++G L +L+TL
Sbjct: 50 FGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKEISNKMFLG-LHQLKTLN 108
Query: 142 LYNNSFTGPIPNSLLNLSKL 161
LY+N + +P S +L+ L
Sbjct: 109 LYDNQISCVMPGSFEHLNSL 128
>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 = 33.5 bits (75), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 31/89 (34%), Positives = 42/89 (47%), Gaps = 5/89 (5%)
Query: 86 LSFLVSLDVAHNNFHGH-LPNELGQLRRLRFIRFGFNKLSGSIPTWIGVLSKLQTLRLYN 144
LS L L +A N+F + LP+ +LR L F+ +L PT LS LQ L + +
Sbjct: 149 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSH 208
Query: 145 NSF--TGPIPNSLLNLSKLEVFDAIYNVI 171
N+F P LN L+V D N I
Sbjct: 209 NNFFSLDTFPYKCLN--SLQVLDYSLNHI 235
>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 = 32.3 bits (72), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 31/89 (34%), Positives = 42/89 (47%), Gaps = 5/89 (5%)
Query: 86 LSFLVSLDVAHNNFHGH-LPNELGQLRRLRFIRFGFNKLSGSIPTWIGVLSKLQTLRLYN 144
LS L L +A N+F + LP+ +LR L F+ +L PT LS LQ L + +
Sbjct: 468 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSH 527
Query: 145 NSF--TGPIPNSLLNLSKLEVFDAIYNVI 171
N+F P LN L+V D N I
Sbjct: 528 NNFFSLDTFPYKCLN--SLQVLDYSLNHI 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 = 32.3 bits (72), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 31/89 (34%), Positives = 42/89 (47%), Gaps = 5/89 (5%)
Query: 86 LSFLVSLDVAHNNFHGH-LPNELGQLRRLRFIRFGFNKLSGSIPTWIGVLSKLQTLRLYN 144
LS L L +A N+F + LP+ +LR L F+ +L PT LS LQ L + +
Sbjct: 444 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSH 503
Query: 145 NSF--TGPIPNSLLNLSKLEVFDAIYNVI 171
N+F P LN L+V D N I
Sbjct: 504 NNFFSLDTFPYKCLN--SLQVLDYSLNHI 530
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 31.2 bits (69), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 89 LVSLDVAHNNFHGHLPNELGQLRRLRFIRFGFNKLSGSIPTWI-GVLSKLQTLRLYNNSF 147
L L + N P L +L ++ G+N+L S+P + L+ L+ LRLYNN
Sbjct: 111 LAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQ-SLPKGVFDKLTSLKELRLYNNQL 169
>pdb|1LTX|A Chain A, Structure Of Rab Escort Protein-1 In Complex With Rab
Geranylgeranyl Transferase And Isoprenoid
Length = 567
Score = 31.2 bits (69), Expect = 0.36, Method: Composition-based stats.
Identities = 23/68 (33%), Positives = 31/68 (45%), Gaps = 3/68 (4%)
Query: 78 TIPLHLGNLSFLVSLDVAHNNFHGHLPNELGQLRRLRFIRFGFNKLSGSIPTWIGVLSKL 137
T+ HL L + LD++HN LP L LR L ++ N L + L +L
Sbjct: 454 TVLCHLEQLLLVTHLDLSHNRLRA-LPPALAALRCLEVLQASDNALENV--DGVANLPRL 510
Query: 138 QTLRLYNN 145
Q L L NN
Sbjct: 511 QELLLCNN 518
>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 = 31.2 bits (69), Expect = 0.36, Method: Composition-based stats.
Identities = 23/68 (33%), Positives = 31/68 (45%), Gaps = 3/68 (4%)
Query: 78 TIPLHLGNLSFLVSLDVAHNNFHGHLPNELGQLRRLRFIRFGFNKLSGSIPTWIGVLSKL 137
T+ HL L + LD++HN LP L LR L ++ N L + L +L
Sbjct: 454 TVLCHLEQLLLVTHLDLSHNRLRA-LPPALAALRCLEVLQASDNALENV--DGVANLPRL 510
Query: 138 QTLRLYNN 145
Q L L NN
Sbjct: 511 QELLLCNN 518
>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 = 0.78, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 36/73 (49%), Gaps = 2/73 (2%)
Query: 86 LSFLVSLDVAHNNFHGH-LPNELGQLRRLRFIRFGFNKLSGSIPTWIGVLSKLQTLRLYN 144
LS L L +A N+F + LP+ +LR L F+ +L PT LS LQ L + +
Sbjct: 444 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMAS 503
Query: 145 NSFTGPIPNSLLN 157
N +P+ + +
Sbjct: 504 NQLKS-VPDGIFD 515
>pdb|3B2D|A Chain A, Crystal Structure Of Human Rp105MD-1 Complex
pdb|3B2D|B Chain B, Crystal Structure Of Human Rp105MD-1 Complex
Length = 603
Score = 30.0 bits (66), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 35/77 (45%), Gaps = 2/77 (2%)
Query: 54 VGISCGSRHQRVTALNLS--DMGLGGTIPLHLGNLSFLVSLDVAHNNFHGHLPNELGQLR 111
+G+ C + + L+LS D+ L L NLS L +L+++HN G +
Sbjct: 338 LGVGCLEKLGNLQTLDLSHNDIEASDCCSLQLKNLSHLQTLNLSHNEPLGLQSQAFKECP 397
Query: 112 RLRFIRFGFNKLSGSIP 128
+L + F +L + P
Sbjct: 398 QLELLDLAFTRLHINAP 414
>pdb|3A79|A Chain A, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
pdb|3A7B|A Chain A, Crystal Structure Of Tlr2-Streptococcus Pneumoniae
Lipoteichoic Acid Complex
pdb|3A7C|A Chain A, Crystal Structure Of Tlr2-Pe-Dtpa Complex
Length = 580
Score = 29.3 bits (64), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 33/69 (47%), Gaps = 7/69 (10%)
Query: 69 NLSDMGLGGTIPLHLGNLSFLVSLDVAHNNFHGHLPNELGQLRRLRFIRF---GFNKLSG 125
+L M G I L L NL+ SLD++ N FH +P+ ++RF+ G +
Sbjct: 398 HLRSMQKTGEILLTLKNLT---SLDISRNTFHP-MPDSCQWPEKMRFLNLSSTGIRVVKT 453
Query: 126 SIPTWIGVL 134
IP + VL
Sbjct: 454 CIPQTLEVL 462
>pdb|2Z81|A Chain A, Crystal Structure Of The Tlr1-tlr2 Heterodimer Induced By
Binding Of A Tri-acylated Lipopeptide
pdb|2Z82|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 549
Score = 28.9 bits (63), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 33/69 (47%), Gaps = 7/69 (10%)
Query: 69 NLSDMGLGGTIPLHLGNLSFLVSLDVAHNNFHGHLPNELGQLRRLRFIRF---GFNKLSG 125
+L M G I L L NL+ SLD++ N FH +P+ ++RF+ G +
Sbjct: 372 HLRSMQKTGEILLTLKNLT---SLDISRNTFHP-MPDSCQWPEKMRFLNLSSTGIRVVKT 427
Query: 126 SIPTWIGVL 134
IP + VL
Sbjct: 428 CIPQTLEVL 436
>pdb|2RDY|A Chain A, Crystal Structure Of A Putative Glycoside Hydrolase Family
Protein From Bacillus Halodurans
pdb|2RDY|B Chain B, Crystal Structure Of A Putative Glycoside Hydrolase Family
Protein From Bacillus Halodurans
Length = 803
Score = 28.5 bits (62), Expect = 2.1, Method: Composition-based stats.
Identities = 17/55 (30%), Positives = 28/55 (50%), Gaps = 2/55 (3%)
Query: 19 LTTDQSALLAFKA--RVVDYRSDLTNNWSISYPICSWVGISCGSRHQRVTALNLS 71
L T+QSA F+A ++ R D WS+ + I W G+R +R+ + L+
Sbjct: 599 LITEQSAPNLFEAAKTSLEIRGDEGTGWSLGWKISLWARFKDGNRCERLLSNXLT 653
>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 = 28.1 bits (61), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 36/73 (49%), Gaps = 3/73 (4%)
Query: 86 LSFLVSLDVAHNNFHGHLPNELGQLRRLRFIRFGFNKLSGSIPTWI-GVLSKLQTLRLYN 144
L+ L L++AHN +L L + +N+L S+P + L++L+ LRLY
Sbjct: 132 LTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQLQ-SLPEGVFDKLTQLKDLRLYQ 190
Query: 145 NSFTGPIPNSLLN 157
N +P+ + +
Sbjct: 191 NQLKS-VPDGVFD 202
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 27.7 bits (60), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 32/124 (25%), Positives = 56/124 (45%), Gaps = 10/124 (8%)
Query: 63 QRVTALNLSDMGLGG--TIPLHLGNLSFLVSLDVAHNNFHGHLPNE-LGQLRRLRFIRFG 119
+R+ L L GL + L N+S L +LDV+ N+ + H + + +
Sbjct: 377 KRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVSLNSLNSHAYDRTCAWAESILVLNLS 436
Query: 120 FNKLSGSIPTWIGVLSKLQTLRLYNNSFTGPIPNSLLNLSKLEVFDAIYN----VIDGTT 175
N L+GS+ + + K++ L L+NN IP + +L L+ + N V DG
Sbjct: 437 SNMLTGSV--FRCLPPKVKVLDLHNNRIMS-IPKDVTHLQALQELNVASNQLKSVPDGVF 493
Query: 176 TKMT 179
++T
Sbjct: 494 DRLT 497
>pdb|1SQ0|B Chain B, Crystal Structure Of The Complex Of The Wild-Type Von
Willebrand Factor A1 Domain And Glycoprotein Ib Alpha At
2.6 Angstrom Resolution
Length = 288
Score = 26.9 bits (58), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 29/83 (34%), Positives = 38/83 (45%), Gaps = 7/83 (8%)
Query: 78 TIPLHLGNLSFLVSLDVAHNNFHGHLPNELGQLR---RLRFIRFGFNKLSGSIPTWIGVL 134
++PL L L LDV+ N LP LG LR L+ + N+L P +
Sbjct: 91 SLPLLGQTLPALTVLDVSFNRLTS-LP--LGALRGLGELQELYLKGNELKTLPPGLLTPT 147
Query: 135 SKLQTLRLYNNSFTGPIPNSLLN 157
KL+ L L NN T +P LLN
Sbjct: 148 PKLEKLSLANNDLTE-LPAGLLN 169
>pdb|4ECO|A Chain A, Crystal Structure Of A Hypothetical Protein (Bacegg_03329)
From Bacteroides Eggerthii Dsm 20697 At 2.70 A
Resolution
pdb|4ECO|B Chain B, Crystal Structure Of A Hypothetical Protein (Bacegg_03329)
From Bacteroides Eggerthii Dsm 20697 At 2.70 A
Resolution
Length = 636
Score = 26.9 bits (58), Expect = 6.6, Method: Composition-based stats.
Identities = 14/39 (35%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 136 KLQTLRL-YNNSFTGPIPNSLLNLSKLEVFDAIYNVIDG 173
K+Q + + YNN T P+ SL KL + +YN ++G
Sbjct: 306 KIQIIYIGYNNLKTFPVETSLQKXKKLGXLECLYNQLEG 344
>pdb|1M0Z|A Chain A, Crystal Structure Of The Von Willebrand Factor Binding
Domain Of Glycoprotein Ib Alpha
pdb|1M0Z|B Chain B, Crystal Structure Of The Von Willebrand Factor Binding
Domain Of Glycoprotein Ib Alpha
Length = 290
Score = 26.9 bits (58), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 29/83 (34%), Positives = 38/83 (45%), Gaps = 7/83 (8%)
Query: 78 TIPLHLGNLSFLVSLDVAHNNFHGHLPNELGQLR---RLRFIRFGFNKLSGSIPTWIGVL 134
++PL L L LDV+ N LP LG LR L+ + N+L P +
Sbjct: 91 SLPLLGQTLPALTVLDVSFNRLTS-LP--LGALRGLGELQELYLKGNELKTLPPGLLTPT 147
Query: 135 SKLQTLRLYNNSFTGPIPNSLLN 157
KL+ L L NN T +P LLN
Sbjct: 148 PKLEKLSLANNQLTE-LPAGLLN 169
>pdb|3PMH|G Chain G, Mechanism Of Sulfotyrosine-Mediated Glycoprotein Ib
Interaction With Two Distinct Alpha-Thrombin Sites
Length = 290
Score = 26.9 bits (58), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 29/83 (34%), Positives = 39/83 (46%), Gaps = 7/83 (8%)
Query: 78 TIPLHLGNLSFLVSLDVAHNNFHGHLPNELGQLR---RLRFIRFGFNKLSGSIPTWIGVL 134
++PL L L LDV+ N LP LG LR L+ + N+L P +
Sbjct: 91 SLPLLGQTLPALTVLDVSFNRLTS-LP--LGALRGLGELQELYLKGNELKTLPPGLLTPT 147
Query: 135 SKLQTLRLYNNSFTGPIPNSLLN 157
KL+ L L NN+ T +P LLN
Sbjct: 148 PKLEKLSLANNNLTE-LPAGLLN 169
>pdb|1M10|B Chain B, Crystal Structure Of The Complex Of Glycoprotein Ib Alpha
And The Von Willebrand Factor A1 Domain
Length = 290
Score = 26.9 bits (58), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 29/83 (34%), Positives = 38/83 (45%), Gaps = 7/83 (8%)
Query: 78 TIPLHLGNLSFLVSLDVAHNNFHGHLPNELGQLR---RLRFIRFGFNKLSGSIPTWIGVL 134
++PL L L LDV+ N LP LG LR L+ + N+L P +
Sbjct: 91 SLPLLGQTLPALTVLDVSFNRLTS-LP--LGALRGLGELQELYLKGNELKTLPPGLLTPT 147
Query: 135 SKLQTLRLYNNSFTGPIPNSLLN 157
KL+ L L NN T +P LLN
Sbjct: 148 PKLEKLSLANNQLTE-LPAGLLN 169
>pdb|1OOK|G Chain G, Crystal Structure Of The Complex Of Platelet Receptor
Gpib-alpha And Human Alpha-thrombin
Length = 290
Score = 26.6 bits (57), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 29/83 (34%), Positives = 39/83 (46%), Gaps = 7/83 (8%)
Query: 78 TIPLHLGNLSFLVSLDVAHNNFHGHLPNELGQLR---RLRFIRFGFNKLSGSIPTWIGVL 134
++PL L L LDV+ N LP LG LR L+ + N+L P +
Sbjct: 91 SLPLLGQTLPALTVLDVSFNRLTS-LP--LGALRGLGELQELYLKGNELKTLPPGLLTPT 147
Query: 135 SKLQTLRLYNNSFTGPIPNSLLN 157
KL+ L L NN+ T +P LLN
Sbjct: 148 PKLEKLSLANNNLTE-LPAGLLN 169
>pdb|1P8V|A Chain A, Crystal Structure Of The Complex Of Platelet Receptor
Gpib-alpha And Alpha-thrombin At 2.6a
Length = 279
Score = 26.6 bits (57), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 29/83 (34%), Positives = 39/83 (46%), Gaps = 7/83 (8%)
Query: 78 TIPLHLGNLSFLVSLDVAHNNFHGHLPNELGQLR---RLRFIRFGFNKLSGSIPTWIGVL 134
++PL L L LDV+ N LP LG LR L+ + N+L P +
Sbjct: 91 SLPLLGQTLPALTVLDVSFNRLTS-LP--LGALRGLGELQELYLKGNELKTLPPGLLTPT 147
Query: 135 SKLQTLRLYNNSFTGPIPNSLLN 157
KL+ L L NN+ T +P LLN
Sbjct: 148 PKLEKLSLANNNLTE-LPAGLLN 169
>pdb|1P9A|G Chain G, Crystal Structure Of N-terminal Domain Of Human Platelet
Receptor Glycoprotein Ib-alpha At 1.7 Angstrom
Resolution
pdb|1QYY|A Chain A, Crystal Structure Of N-Terminal Domain Of Human Platelet
Receptor Glycoprotein Ib-Alpha At 2.8 Angstrom
Resolution
pdb|1QYY|G Chain G, Crystal Structure Of N-Terminal Domain Of Human Platelet
Receptor Glycoprotein Ib-Alpha At 2.8 Angstrom
Resolution
Length = 290
Score = 26.6 bits (57), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 29/83 (34%), Positives = 39/83 (46%), Gaps = 7/83 (8%)
Query: 78 TIPLHLGNLSFLVSLDVAHNNFHGHLPNELGQLR---RLRFIRFGFNKLSGSIPTWIGVL 134
++PL L L LDV+ N LP LG LR L+ + N+L P +
Sbjct: 91 SLPLLGQTLPALTVLDVSFNRLTS-LP--LGALRGLGELQELYLKGNELKTLPPGLLTPT 147
Query: 135 SKLQTLRLYNNSFTGPIPNSLLN 157
KL+ L L NN+ T +P LLN
Sbjct: 148 PKLEKLSLANNNLTE-LPAGLLN 169
>pdb|1GWB|B Chain B, Structure Of Glycoprotein 1b
pdb|1GWB|A Chain A, Structure Of Glycoprotein 1b
Length = 281
Score = 26.6 bits (57), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 32/93 (34%), Positives = 43/93 (46%), Gaps = 9/93 (9%)
Query: 78 TIPLHLGNLSFLVSLDVAHNNFHGHLPNELGQLR---RLRFIRFGFNKLSGSIPTWIGVL 134
++PL L L LDV+ N LP LG LR L+ + N+L P +
Sbjct: 92 SLPLLGQTLPALTVLDVSFNRLTS-LP--LGALRGLGELQELYLKGNELKTLPPGLLTPT 148
Query: 135 SKLQTLRLYNNSFTGPIPNSLLNLSKLEVFDAI 167
KL+ L L NN+ T +P LLN LE D +
Sbjct: 149 PKLEKLSLANNNLTE-LPAGLLN--GLENLDTL 178
>pdb|3CIG|A Chain A, Crystal Structure Of Mouse Tlr3 Ectodomain
pdb|3CIY|A Chain A, Mouse Toll-Like Receptor 3 Ectodomain Complexed With
Double-Stranded Rna
pdb|3CIY|B Chain B, Mouse Toll-Like Receptor 3 Ectodomain Complexed With
Double-Stranded Rna
Length = 697
Score = 26.6 bits (57), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 19/80 (23%), Positives = 33/80 (41%)
Query: 92 LDVAHNNFHGHLPNELGQLRRLRFIRFGFNKLSGSIPTWIGVLSKLQTLRLYNNSFTGPI 151
L++ HN P + +L + GFN +S P +L L+ L L +N +
Sbjct: 30 LNLTHNQLRRLPPTNFTRYSQLAILDAGFNSISKLEPELCQILPLLKVLNLQHNELSQIS 89
Query: 152 PNSLLNLSKLEVFDAIYNVI 171
+ + + L D + N I
Sbjct: 90 DQTFVFCTNLTELDLMSNSI 109
>pdb|1U0N|D Chain D, The Ternary Von Willebrand Factor A1-Glycoprotein Ibalpha-
Botrocetin Complex
Length = 265
Score = 26.6 bits (57), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 29/83 (34%), Positives = 38/83 (45%), Gaps = 7/83 (8%)
Query: 78 TIPLHLGNLSFLVSLDVAHNNFHGHLPNELGQLR---RLRFIRFGFNKLSGSIPTWIGVL 134
++PL L L LDV+ N LP LG LR L+ + N+L P +
Sbjct: 91 SLPLLGQTLPALTVLDVSFNRLTS-LP--LGALRGLGELQELYLKGNELKTLPPGLLTPT 147
Query: 135 SKLQTLRLYNNSFTGPIPNSLLN 157
KL+ L L NN T +P LLN
Sbjct: 148 PKLEKLSLANNQLTE-LPAGLLN 169
>pdb|1WYQ|A Chain A, Solution Structure Of The Second Ch Domain Of Human
Spectrin Beta Chain, Brain 2
Length = 127
Score = 26.6 bits (57), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 30/76 (39%), Gaps = 9/76 (11%)
Query: 1 MLLVQYSIASLAMTTLSNLTTDQSALLAFKARVVDYRSDLTNNWSISYPICSWVGISCGS 60
+L Q A + N TT LAF A V +R DL + S+ C +
Sbjct: 13 LLWCQMKTAGYPNVNVHNFTTSWRDGLAFNAIVHKHRPDLLDFESLK---------KCNA 63
Query: 61 RHQRVTALNLSDMGLG 76
+ A NL++ LG
Sbjct: 64 HYNLQNAFNLAEKELG 79
>pdb|3P72|A Chain A, Structure Of Platelet Glycoprotein 1b Alpha With A Bound
Peptide Inhibitor
Length = 269
Score = 26.2 bits (56), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 29/83 (34%), Positives = 38/83 (45%), Gaps = 7/83 (8%)
Query: 78 TIPLHLGNLSFLVSLDVAHNNFHGHLPNELGQLR---RLRFIRFGFNKLSGSIPTWIGVL 134
++PL L L LDV+ N LP LG LR L+ + N+L P +
Sbjct: 91 SLPLLGQTLPALTVLDVSFNRLTS-LP--LGALRGLGELQELYLKGNELKTLPPGLLTPT 147
Query: 135 SKLQTLRLYNNSFTGPIPNSLLN 157
KL+ L L NN T +P LLN
Sbjct: 148 PKLEKLSLANNQLTE-LPAGLLN 169
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
0.323 0.137 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,132,066
Number of Sequences: 62578
Number of extensions: 198723
Number of successful extensions: 826
Number of sequences better than 100.0: 35
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 22
Number of HSP's that attempted gapping in prelim test: 740
Number of HSP's gapped (non-prelim): 74
length of query: 183
length of database: 14,973,337
effective HSP length: 93
effective length of query: 90
effective length of database: 9,153,583
effective search space: 823822470
effective search space used: 823822470
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: 48 (23.1 bits)