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= 045729
(218 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 = 72.4 bits (176), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 45/123 (36%), Positives = 63/123 (51%)
Query: 68 CGSRHQRVTALNLSDIGLGGTIPPHLGNLTFLVSLDVAHNNFRGHLPNELGQLRRLRFIR 127
C + + L L + G G IPP L N + LVSL ++ N G +P+ LG L +LR ++
Sbjct: 389 CQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLK 448
Query: 128 FGFNKLSGSIPTWIGVLSKLQTLRLYNNSFTGPIPNSLFNLSKLEVFNAMYNVIDGNIPS 187
N L G IP + + L+TL L N TG IP+ L N + L + N + G IP
Sbjct: 449 LWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPK 508
Query: 188 RIG 190
IG
Sbjct: 509 WIG 511
Score = 67.4 bits (163), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 33/90 (36%), Positives = 51/90 (56%), Gaps = 4/90 (4%)
Query: 85 LGGTIPPHLGNLTFLVSLDVAHNNFRGHLPNELGQLRRLRFIRFGFNKLSGSIPTWIGVL 144
L G IP +G++ +L L++ HN+ G +P+E+G LR L + NKL G IP + L
Sbjct: 644 LSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSAL 703
Query: 145 SKLQTLRLYNNSFTGPIPNSLFNLSKLEVF 174
+ L + L NN+ +GPIP + + E F
Sbjct: 704 TMLTEIDLSNNNLSGPIP----EMGQFETF 729
Score = 67.0 bits (162), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 43/125 (34%), Positives = 63/125 (50%)
Query: 70 SRHQRVTALNLSDIGLGGTIPPHLGNLTFLVSLDVAHNNFRGHLPNELGQLRRLRFIRFG 129
S + +L+LS L GTIP LG+L+ L L + N G +P EL ++ L +
Sbjct: 415 SNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILD 474
Query: 130 FNKLSGSIPTWIGVLSKLQTLRLYNNSFTGPIPNSLFNLSKLEVFNAMYNVIDGNIPSRI 189
FN L+G IP+ + + L + L NN TG IP + L L + N GNIP+ +
Sbjct: 475 FNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAEL 534
Query: 190 GNFSS 194
G+ S
Sbjct: 535 GDCRS 539
Score = 64.3 bits (155), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 38/105 (36%), Positives = 55/105 (52%)
Query: 85 LGGTIPPHLGNLTFLVSLDVAHNNFRGHLPNELGQLRRLRFIRFGFNKLSGSIPTWIGVL 144
L G IP L + L +L + N+ G +P+ L L +I N+L+G IP WIG L
Sbjct: 454 LEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRL 513
Query: 145 SKLQTLRLYNNSFTGPIPNSLFNLSKLEVFNAMYNVIDGNIPSRI 189
L L+L NNSF+G IP L + L + N+ +G IP+ +
Sbjct: 514 ENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAM 558
Score = 62.8 bits (151), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 54/180 (30%), Positives = 84/180 (46%), Gaps = 34/180 (18%)
Query: 42 RVVDYRSVLTNNWSISYPICTWIGISCGSRHQRVTALNLSDIGLGGTIPPHLGNLTFLVS 101
+ + Y S+ N ++ P ++ +C +T L+LS G +PP G+ + L S
Sbjct: 269 KSLQYLSLAENKFTGEIP--DFLSGAC----DTLTGLDLSGNHFYGAVPPFFGSCSLLES 322
Query: 102 LDVAHNNFRGHLP-NELGQLRRLRFIRFGFNKLSGSIPTWIGVLSK-------------- 146
L ++ NNF G LP + L ++R L+ + FN+ SG +P + LS
Sbjct: 323 LALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSG 382
Query: 147 -------------LQTLRLYNNSFTGPIPNSLFNLSKLEVFNAMYNVIDGNIPSRIGNFS 193
LQ L L NN FTG IP +L N S+L + +N + G IPS +G+ S
Sbjct: 383 PILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLS 442
Score = 60.5 bits (145), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 36/109 (33%), Positives = 56/109 (51%), Gaps = 1/109 (0%)
Query: 86 GGTIPPHLGNLTFLVSLDVAHNNFRGHLPNELGQLRRLRFIRFGFNKLSGSIPTWIGVLS 145
GG P N ++ LD+++N G++P E+G + L + G N +SGSIP +G L
Sbjct: 621 GGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLR 680
Query: 146 KLQTLRLYNNSFTGPIPNSLFNLSKLEVFNAMYNVIDGNIPSRIGNFSS 194
L L L +N G IP ++ L+ L + N + G IP +G F +
Sbjct: 681 GLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIP-EMGQFET 728
Score = 45.1 bits (105), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 33/93 (35%), Positives = 44/93 (47%), Gaps = 6/93 (6%)
Query: 95 NLTFLVSLDVAHNNFRGHLPNELGQLRRLRFIRFGFNKLSGSIPTWIGVLSKLQTLRLYN 154
NL FL DV+ NNF +P LG L+ + NKLSG I ++L+ L + +
Sbjct: 201 NLEFL---DVSSNNFSTGIP-FLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISS 256
Query: 155 NSFTGPIPNSLFNLSKLEVFNAMYNVIDGNIPS 187
N F GPIP L L+ + N G IP
Sbjct: 257 NQFVGPIP--PLPLKSLQYLSLAENKFTGEIPD 287
Score = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 38/64 (59%)
Query: 78 LNLSDIGLGGTIPPHLGNLTFLVSLDVAHNNFRGHLPNELGQLRRLRFIRFGFNKLSGSI 137
++LS+ L G IP +G L L L +++N+F G++P ELG R L ++ N +G+I
Sbjct: 495 ISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTI 554
Query: 138 PTWI 141
P +
Sbjct: 555 PAAM 558
Score = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 33/73 (45%), Gaps = 2/73 (2%)
Query: 91 PHLGNLTFLVSLDVAHNNFRGHLPNELGQLRRLRFIRFGFNKLSGSIPTWIGVLSKLQTL 150
P LG+ + L LD++ N G + L+ + N+ G IP L LQ L
Sbjct: 217 PFLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPL--PLKSLQYL 274
Query: 151 RLYNNSFTGPIPN 163
L N FTG IP+
Sbjct: 275 SLAENKFTGEIPD 287
Score = 33.1 bits (74), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 43/170 (25%), Positives = 73/170 (42%), Gaps = 28/170 (16%)
Query: 50 LTNNWSISYPICTWIGISCGSRHQRVTALNLSDIGLGGTIPPHLGNLTFLVSLDVAHNNF 109
L+NN ++ I WIG R + + L LS+ G IP LG+ L+ LD+ N F
Sbjct: 497 LSNN-RLTGEIPKWIG-----RLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLF 550
Query: 110 RGHLP----NELGQL-------RRLRFIR-FGFNKL---SGSIPTWIGV-------LSKL 147
G +P + G++ +R +I+ G K +G++ + G+ LS
Sbjct: 551 NGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTR 610
Query: 148 QTLRLYNNSFTGPIPNSLFNLSKLEVFNAMYNVIDGNIPSRIGNFSSPFI 197
+ + + G + N + + YN++ G IP IG+ FI
Sbjct: 611 NPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFI 660
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 28/46 (60%), Gaps = 4/46 (8%)
Query: 36 LLAFKARVVDYRSVLTNNWSISYPICTWIGISCGSRHQRVTALNLS 81
L++FK + D L +WS + CT+ G++C R +VT+++LS
Sbjct: 17 LISFKDVLPDKN--LLPDWSSNKNPCTFDGVTC--RDDKVTSIDLS 58
>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 = 72.4 bits (176), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 45/123 (36%), Positives = 63/123 (51%)
Query: 68 CGSRHQRVTALNLSDIGLGGTIPPHLGNLTFLVSLDVAHNNFRGHLPNELGQLRRLRFIR 127
C + + L L + G G IPP L N + LVSL ++ N G +P+ LG L +LR ++
Sbjct: 386 CQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLK 445
Query: 128 FGFNKLSGSIPTWIGVLSKLQTLRLYNNSFTGPIPNSLFNLSKLEVFNAMYNVIDGNIPS 187
N L G IP + + L+TL L N TG IP+ L N + L + N + G IP
Sbjct: 446 LWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPK 505
Query: 188 RIG 190
IG
Sbjct: 506 WIG 508
Score = 67.0 bits (162), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 33/90 (36%), Positives = 51/90 (56%), Gaps = 4/90 (4%)
Query: 85 LGGTIPPHLGNLTFLVSLDVAHNNFRGHLPNELGQLRRLRFIRFGFNKLSGSIPTWIGVL 144
L G IP +G++ +L L++ HN+ G +P+E+G LR L + NKL G IP + L
Sbjct: 641 LSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSAL 700
Query: 145 SKLQTLRLYNNSFTGPIPNSLFNLSKLEVF 174
+ L + L NN+ +GPIP + + E F
Sbjct: 701 TMLTEIDLSNNNLSGPIP----EMGQFETF 726
Score = 67.0 bits (162), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 43/125 (34%), Positives = 63/125 (50%)
Query: 70 SRHQRVTALNLSDIGLGGTIPPHLGNLTFLVSLDVAHNNFRGHLPNELGQLRRLRFIRFG 129
S + +L+LS L GTIP LG+L+ L L + N G +P EL ++ L +
Sbjct: 412 SNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILD 471
Query: 130 FNKLSGSIPTWIGVLSKLQTLRLYNNSFTGPIPNSLFNLSKLEVFNAMYNVIDGNIPSRI 189
FN L+G IP+ + + L + L NN TG IP + L L + N GNIP+ +
Sbjct: 472 FNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAEL 531
Query: 190 GNFSS 194
G+ S
Sbjct: 532 GDCRS 536
Score = 64.3 bits (155), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 38/105 (36%), Positives = 55/105 (52%)
Query: 85 LGGTIPPHLGNLTFLVSLDVAHNNFRGHLPNELGQLRRLRFIRFGFNKLSGSIPTWIGVL 144
L G IP L + L +L + N+ G +P+ L L +I N+L+G IP WIG L
Sbjct: 451 LEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRL 510
Query: 145 SKLQTLRLYNNSFTGPIPNSLFNLSKLEVFNAMYNVIDGNIPSRI 189
L L+L NNSF+G IP L + L + N+ +G IP+ +
Sbjct: 511 ENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAM 555
Score = 62.8 bits (151), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 54/180 (30%), Positives = 84/180 (46%), Gaps = 34/180 (18%)
Query: 42 RVVDYRSVLTNNWSISYPICTWIGISCGSRHQRVTALNLSDIGLGGTIPPHLGNLTFLVS 101
+ + Y S+ N ++ P ++ +C +T L+LS G +PP G+ + L S
Sbjct: 266 KSLQYLSLAENKFTGEIP--DFLSGAC----DTLTGLDLSGNHFYGAVPPFFGSCSLLES 319
Query: 102 LDVAHNNFRGHLP-NELGQLRRLRFIRFGFNKLSGSIPTWIGVLSK-------------- 146
L ++ NNF G LP + L ++R L+ + FN+ SG +P + LS
Sbjct: 320 LALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSG 379
Query: 147 -------------LQTLRLYNNSFTGPIPNSLFNLSKLEVFNAMYNVIDGNIPSRIGNFS 193
LQ L L NN FTG IP +L N S+L + +N + G IPS +G+ S
Sbjct: 380 PILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLS 439
Score = 60.1 bits (144), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 36/109 (33%), Positives = 56/109 (51%), Gaps = 1/109 (0%)
Query: 86 GGTIPPHLGNLTFLVSLDVAHNNFRGHLPNELGQLRRLRFIRFGFNKLSGSIPTWIGVLS 145
GG P N ++ LD+++N G++P E+G + L + G N +SGSIP +G L
Sbjct: 618 GGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLR 677
Query: 146 KLQTLRLYNNSFTGPIPNSLFNLSKLEVFNAMYNVIDGNIPSRIGNFSS 194
L L L +N G IP ++ L+ L + N + G IP +G F +
Sbjct: 678 GLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIP-EMGQFET 725
Score = 45.1 bits (105), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 33/93 (35%), Positives = 44/93 (47%), Gaps = 6/93 (6%)
Query: 95 NLTFLVSLDVAHNNFRGHLPNELGQLRRLRFIRFGFNKLSGSIPTWIGVLSKLQTLRLYN 154
NL FL DV+ NNF +P LG L+ + NKLSG I ++L+ L + +
Sbjct: 198 NLEFL---DVSSNNFSTGIP-FLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISS 253
Query: 155 NSFTGPIPNSLFNLSKLEVFNAMYNVIDGNIPS 187
N F GPIP L L+ + N G IP
Sbjct: 254 NQFVGPIP--PLPLKSLQYLSLAENKFTGEIPD 284
Score = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 38/64 (59%)
Query: 78 LNLSDIGLGGTIPPHLGNLTFLVSLDVAHNNFRGHLPNELGQLRRLRFIRFGFNKLSGSI 137
++LS+ L G IP +G L L L +++N+F G++P ELG R L ++ N +G+I
Sbjct: 492 ISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTI 551
Query: 138 PTWI 141
P +
Sbjct: 552 PAAM 555
Score = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 33/73 (45%), Gaps = 2/73 (2%)
Query: 91 PHLGNLTFLVSLDVAHNNFRGHLPNELGQLRRLRFIRFGFNKLSGSIPTWIGVLSKLQTL 150
P LG+ + L LD++ N G + L+ + N+ G IP L LQ L
Sbjct: 214 PFLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPL--PLKSLQYL 271
Query: 151 RLYNNSFTGPIPN 163
L N FTG IP+
Sbjct: 272 SLAENKFTGEIPD 284
Score = 33.1 bits (74), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 43/170 (25%), Positives = 73/170 (42%), Gaps = 28/170 (16%)
Query: 50 LTNNWSISYPICTWIGISCGSRHQRVTALNLSDIGLGGTIPPHLGNLTFLVSLDVAHNNF 109
L+NN ++ I WIG R + + L LS+ G IP LG+ L+ LD+ N F
Sbjct: 494 LSNN-RLTGEIPKWIG-----RLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLF 547
Query: 110 RGHLP----NELGQL-------RRLRFIR-FGFNKL---SGSIPTWIGV-------LSKL 147
G +P + G++ +R +I+ G K +G++ + G+ LS
Sbjct: 548 NGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTR 607
Query: 148 QTLRLYNNSFTGPIPNSLFNLSKLEVFNAMYNVIDGNIPSRIGNFSSPFI 197
+ + + G + N + + YN++ G IP IG+ FI
Sbjct: 608 NPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFI 657
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 28/46 (60%), Gaps = 4/46 (8%)
Query: 36 LLAFKARVVDYRSVLTNNWSISYPICTWIGISCGSRHQRVTALNLS 81
L++FK + D L +WS + CT+ G++C R +VT+++LS
Sbjct: 14 LISFKDVLPDKN--LLPDWSSNKNPCTFDGVTC--RDDKVTSIDLS 55
>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 = 68.2 bits (165), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 60/216 (27%), Positives = 92/216 (42%), Gaps = 38/216 (17%)
Query: 32 DQSALLAFKARVVDYRSVLTNNWSISYPIC--TWIGISCGSRHQ--RVTALNLSDIGLG- 86
D+ ALL K + + ++ ++W + C TW+G+ C + Q RV L+LS + L
Sbjct: 7 DKQALLQIKKDLGNPTTL--SSWLPTTDCCNRTWLGVLCDTDTQTYRVNNLDLSGLNLPK 64
Query: 87 --------------------------GTIPPHLGNLTFLVSLDVAHNNFRGHLPNELGQL 120
G IPP + LT L L + H N G +P+ L Q+
Sbjct: 65 PYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQI 124
Query: 121 RRLRFIRFGFNKLSGSIPTWIGVLSKLQTLRLYNNSFTGPIPNSLFNLSKLEVFNAMY-- 178
+ L + F +N LSG++P I L L + N +G IP+S + SKL F +M
Sbjct: 125 KTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKL--FTSMTIS 182
Query: 179 -NVIDGNIPSRIGNFSSPFIXXXXXXXXXXXXTIFG 213
N + G IP N + F+ +FG
Sbjct: 183 RNRLTGKIPPTFANLNLAFVDLSRNMLEGDASVLFG 218
Score = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 37/123 (30%), Positives = 53/123 (43%), Gaps = 2/123 (1%)
Query: 64 IGISCGSRHQRVTALNLSDIGLGGTIPPHLGNLTFLVSLDVAHNNFRGHLPNELGQLRRL 123
I S GS + T++ +S L G IPP NL L +D++ N G G +
Sbjct: 165 IPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLN-LAFVDLSRNMLEGDASVLFGSDKNT 223
Query: 124 RFIRFGFNKLSGSIPTWIGVLSKLQTLRLYNNSFTGPIPNSLFNLSKLEVFNAMYNVIDG 183
+ I N L+ + +G+ L L L NN G +P L L L N +N + G
Sbjct: 224 QKIHLAKNSLAFDL-GKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCG 282
Query: 184 NIP 186
IP
Sbjct: 283 EIP 285
Score = 34.3 bits (77), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 24/65 (36%), Positives = 36/65 (55%), Gaps = 2/65 (3%)
Query: 73 QRVTALNLSDIGLGGTIPPHLGNLTFLVSLDVAHNNFRGHLPNELGQLRRLRFIRFGFNK 132
+ + L+L + + GT+P L L FL SL+V+ NN G +P + G L+R + NK
Sbjct: 244 KNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIP-QGGNLQRFDVSAYANNK 302
Query: 133 -LSGS 136
L GS
Sbjct: 303 CLCGS 307
>pdb|1W8A|A Chain A, Third Lrr Domain Of Drosophila Slit
Length = 192
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 35/114 (30%), Positives = 53/114 (46%), Gaps = 3/114 (2%)
Query: 74 RVTALNLSDIGLGGTIPPHL-GNLTFLVSLDVAHNNFRGHLPNELGQLRRLRFIRFGFNK 132
T L L+D LG L G L LV L++ N G PN ++ ++ G NK
Sbjct: 30 HTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENK 89
Query: 133 LSG-SIPTWIGVLSKLQTLRLYNNSFTGPIPNSLFNLSKLEVFNAMYNVIDGNI 185
+ S ++G L +L+TL LY+N + +P S +L+ L N N + N
Sbjct: 90 IKEISNKMFLG-LHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASNPFNCNC 142
>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 = 37.4 bits (85), Expect = 0.007, Method: Composition-based stats.
Identities = 23/67 (34%), Positives = 36/67 (53%), Gaps = 2/67 (2%)
Query: 89 IPPHLGNLTFLVSLDVAHNNFRGHLPNELGQLRRLRFIRFGFNKLSGSIPTWIGVLSKLQ 148
+P + NL+ L LD++HN LP ELG +L++ F F+ + ++P G L LQ
Sbjct: 262 LPAEIKNLSNLRVLDLSHNRLTS-LPAELGSCFQLKYFYF-FDNMVTTLPWEFGNLCNLQ 319
Query: 149 TLRLYNN 155
L + N
Sbjct: 320 FLGVEGN 326
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 33.1 bits (74), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 30/103 (29%), Positives = 48/103 (46%), Gaps = 11/103 (10%)
Query: 96 LTFLVSLDVAHNNFRGHLPNELGQLRRLRFIRFGFNKLSGSIPTWI-GVLSKLQTLRLYN 154
L L L + N + P L +L ++ G+N+L S+P + L+ L+ LRLYN
Sbjct: 108 LVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQ-SLPKGVFDKLTSLKELRLYN 166
Query: 155 NSFTGPIPNSLFN-LSKLEVFNAMYNVIDGNIPSRI--GNFSS 194
N +P F+ L++L+ +D N R+ G F S
Sbjct: 167 NQLKR-VPEGAFDKLTELKTLK-----LDNNQLKRVPEGAFDS 203
Score = 29.6 bits (65), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 26/97 (26%), Positives = 45/97 (46%), Gaps = 3/97 (3%)
Query: 88 TIPPHL-GNLTFLVSLDVAHNNFRGHLPNELGQLRRLRFIRFGFNKLSGSIPTWIGVLSK 146
++PP + +LT L L + +N + +L L+ +R N+L L++
Sbjct: 123 SLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTSLKELRLYNNQLKRVPEGAFDKLTE 182
Query: 147 LQTLRLYNNSFTGPIPNSLFN-LSKLEVFNAMYNVID 182
L+TL+L NN +P F+ L KL++ N D
Sbjct: 183 LKTLKLDNNQLKR-VPEGAFDSLEKLKMLQLQENPWD 218
>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 = 0.12, Method: Compositional matrix adjust.
Identities = 28/81 (34%), Positives = 38/81 (46%), Gaps = 5/81 (6%)
Query: 75 VTALNLSDIGLGGTIPPHLGNLTFLVSLDVAHNNFRGHLPNELGQLRRLRFIRFGFNKLS 134
V L+L+ L T+ HL L + LD++HN R LP L LR L ++ N L
Sbjct: 443 VRVLHLAHKDL--TVLCHLEQLLLVTHLDLSHNRLRA-LPPALAALRCLEVLQASDNALE 499
Query: 135 GSIPTWIGVLSKLQTLRLYNN 155
+ L +LQ L L NN
Sbjct: 500 NV--DGVANLPRLQELLLCNN 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 = 33.1 bits (74), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 28/81 (34%), Positives = 38/81 (46%), Gaps = 5/81 (6%)
Query: 75 VTALNLSDIGLGGTIPPHLGNLTFLVSLDVAHNNFRGHLPNELGQLRRLRFIRFGFNKLS 134
V L+L+ L T+ HL L + LD++HN R LP L LR L ++ N L
Sbjct: 443 VRVLHLAHKDL--TVLCHLEQLLLVTHLDLSHNRLRA-LPPALAALRCLEVLQASDNALE 499
Query: 135 GSIPTWIGVLSKLQTLRLYNN 155
+ L +LQ L L NN
Sbjct: 500 NV--DGVANLPRLQELLLCNN 518
>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 = 32.3 bits (72), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 38/73 (52%), Gaps = 3/73 (4%)
Query: 96 LTFLVSLDVAHNNFRGHLPNELGQLRRLRFIRFGFNKLSGSIPTWI-GVLSKLQTLRLYN 154
LT L L++AHN + +L L + +N+L S+P + L++L+ LRLY
Sbjct: 132 LTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQLQ-SLPEGVFDKLTQLKDLRLYQ 190
Query: 155 NSFTGPIPNSLFN 167
N +P+ +F+
Sbjct: 191 NQLKS-VPDGVFD 202
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 32.3 bits (72), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 38/73 (52%), Gaps = 2/73 (2%)
Query: 96 LTFLVSLDVAHNNFRGH-LPNELGQLRRLRFIRFGFNKLSGSIPTWIGVLSKLQTLRLYN 154
L+ L L +A N+F+ + LP+ +LR L F+ +L PT LS LQ L + +
Sbjct: 444 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMAS 503
Query: 155 NSFTGPIPNSLFN 167
N +P+ +F+
Sbjct: 504 NQLKS-VPDGIFD 515
>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 = 32.0 bits (71), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 34/63 (53%), Gaps = 1/63 (1%)
Query: 96 LTFLVSLDVAHNNFRGH-LPNELGQLRRLRFIRFGFNKLSGSIPTWIGVLSKLQTLRLYN 154
L+ L L +A N+F+ + LP+ +LR L F+ +L PT LS LQ L + +
Sbjct: 149 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSH 208
Query: 155 NSF 157
N+F
Sbjct: 209 NNF 211
>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 = 31.6 bits (70), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 34/63 (53%), Gaps = 1/63 (1%)
Query: 96 LTFLVSLDVAHNNFRGH-LPNELGQLRRLRFIRFGFNKLSGSIPTWIGVLSKLQTLRLYN 154
L+ L L +A N+F+ + LP+ +LR L F+ +L PT LS LQ L + +
Sbjct: 468 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSH 527
Query: 155 NSF 157
N+F
Sbjct: 528 NNF 530
>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 = 31.6 bits (70), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 34/63 (53%), Gaps = 1/63 (1%)
Query: 96 LTFLVSLDVAHNNFRGH-LPNELGQLRRLRFIRFGFNKLSGSIPTWIGVLSKLQTLRLYN 154
L+ L L +A N+F+ + LP+ +LR L F+ +L PT LS LQ L + +
Sbjct: 444 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSH 503
Query: 155 NSF 157
N+F
Sbjct: 504 NNF 506
>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 = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 29/102 (28%), Positives = 44/102 (43%), Gaps = 9/102 (8%)
Query: 95 NLTFLVSLDVAHNNFRGHLPNELGQLRRLRFIRFGFNK-LSGS--IPTWIG-----VLSK 146
NL L ++V + LP L L + I N+ +SG W V K
Sbjct: 247 NLKDLTDVEVYNCPNLTKLPTFLKALPEXQLINVACNRGISGEQLKDDWQALADAPVGEK 306
Query: 147 LQTLRL-YNNSFTGPIPNSLFNLSKLEVFNAMYNVIDGNIPS 187
+Q + + YNN T P+ SL KL +YN ++G +P+
Sbjct: 307 IQIIYIGYNNLKTFPVETSLQKXKKLGXLECLYNQLEGKLPA 348
>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 = 28.9 bits (63), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 40/87 (45%), Gaps = 5/87 (5%)
Query: 102 LDVAHNNFRGHLPNELGQLRRLRFIRFGFNKLSGSIPTWIGVLSKLQTLRLYNNSFTGPI 161
L++ HN R P + +L + GFN +S P +L L+ L L +N + I
Sbjct: 30 LNLTHNQLRRLPPTNFTRYSQLAILDAGFNSISKLEPELCQILPLLKVLNLQHNELSQ-I 88
Query: 162 PNSLF----NLSKLEVFNAMYNVIDGN 184
+ F NL++L++ + + I N
Sbjct: 89 SDQTFVFCTNLTELDLMSNSIHKIKSN 115
>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 = 28.9 bits (63), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 34/77 (44%), Gaps = 2/77 (2%)
Query: 64 IGISCGSRHQRVTALNLS--DIGLGGTIPPHLGNLTFLVSLDVAHNNFRGHLPNELGQLR 121
+G+ C + + L+LS DI L NL+ L +L+++HN G +
Sbjct: 338 LGVGCLEKLGNLQTLDLSHNDIEASDCCSLQLKNLSHLQTLNLSHNEPLGLQSQAFKECP 397
Query: 122 RLRFIRFGFNKLSGSIP 138
+L + F +L + P
Sbjct: 398 QLELLDLAFTRLHINAP 414
>pdb|2O6S|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B59
pdb|2O6S|B Chain B, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B59
Length = 208
Score = 28.5 bits (62), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 28/94 (29%), Positives = 49/94 (52%), Gaps = 6/94 (6%)
Query: 96 LTFLVSLDVAHNNFRGHLPNEL-GQLRRLRFIRFGFNKLSGSIPTWI-GVLSKLQTLRLY 153
LT L L+++ N + LPN + +L +L+ + N+L S+P + L++L+ LRLY
Sbjct: 75 LTSLTYLNLSTNQLQS-LPNGVFDKLTQLKELALNTNQLQ-SLPDGVFDKLTQLKDLRLY 132
Query: 154 NNSFTGPIPNSLFN-LSKLEVFNAMYNVIDGNIP 186
N +P+ +F+ L+ L+ N D P
Sbjct: 133 QNQLKS-VPDGVFDRLTSLQYIWLHDNPWDCTCP 165
>pdb|2V9T|B Chain B, Complex Between The Second Lrr Domain Of Slit2 And The
First Ig Domain From Robo1
Length = 220
Score = 27.7 bits (60), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 29/69 (42%), Gaps = 1/69 (1%)
Query: 99 LVSLDVAHNNFRGHLPNELGQLRRLRFIRFGFNKLSGSIPTWIGVLSKLQTLRLYNNSFT 158
+ + + N + P ++LR I N++S P L L +L LY N T
Sbjct: 34 ITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNKIT 93
Query: 159 GPIPNSLFN 167
+P SLF
Sbjct: 94 E-LPKSLFE 101
>pdb|2V9S|A Chain A, Second Lrr Domain Of Human Slit2
pdb|2V9S|B Chain B, Second Lrr Domain Of Human Slit2
pdb|2V9S|C Chain C, Second Lrr Domain Of Human Slit2
pdb|2V9S|D Chain D, Second Lrr Domain Of Human Slit2
Length = 220
Score = 27.7 bits (60), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 29/69 (42%), Gaps = 1/69 (1%)
Query: 99 LVSLDVAHNNFRGHLPNELGQLRRLRFIRFGFNKLSGSIPTWIGVLSKLQTLRLYNNSFT 158
+ + + N + P ++LR I N++S P L L +L LY N T
Sbjct: 34 ITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNKIT 93
Query: 159 GPIPNSLFN 167
+P SLF
Sbjct: 94 E-LPKSLFE 101
>pdb|3P72|A Chain A, Structure Of Platelet Glycoprotein 1b Alpha With A Bound
Peptide Inhibitor
Length = 269
Score = 26.9 bits (58), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 42/141 (29%), Positives = 59/141 (41%), Gaps = 33/141 (23%)
Query: 72 HQRVTALNL-----SDIGLGGTIP---------------PHLGN-LTFLVSLDVAHNNFR 110
+ R+T LNL + + + GT+P P LG L L LDV+ N
Sbjct: 54 YTRLTQLNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLT 113
Query: 111 GHLPNELGQLR---RLRFIRFGFNKLSGSIPTWIGVLSKLQTLRLYNNSFTGPIPNSLFN 167
LP LG LR L+ + N+L P + KL+ L L NN T +P L N
Sbjct: 114 S-LP--LGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLTE-LPAGLLN 169
Query: 168 -LSKLEVF----NAMYNVIDG 183
L L+ N++Y + G
Sbjct: 170 GLENLDTLLLQENSLYTIPKG 190
>pdb|1U0N|D Chain D, The Ternary Von Willebrand Factor A1-Glycoprotein Ibalpha-
Botrocetin Complex
Length = 265
Score = 26.9 bits (58), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 42/141 (29%), Positives = 59/141 (41%), Gaps = 33/141 (23%)
Query: 72 HQRVTALNL-----SDIGLGGTIP---------------PHLGN-LTFLVSLDVAHNNFR 110
+ R+T LNL + + + GT+P P LG L L LDV+ N
Sbjct: 54 YTRLTQLNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLT 113
Query: 111 GHLPNELGQLR---RLRFIRFGFNKLSGSIPTWIGVLSKLQTLRLYNNSFTGPIPNSLFN 167
LP LG LR L+ + N+L P + KL+ L L NN T +P L N
Sbjct: 114 S-LP--LGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLTE-LPAGLLN 169
Query: 168 -LSKLEVF----NAMYNVIDG 183
L L+ N++Y + G
Sbjct: 170 GLENLDTLLLQENSLYTIPKG 190
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
0.327 0.142 0.433
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,601,304
Number of Sequences: 62578
Number of extensions: 210366
Number of successful extensions: 633
Number of sequences better than 100.0: 47
Number of HSP's better than 100.0 without gapping: 19
Number of HSP's successfully gapped in prelim test: 28
Number of HSP's that attempted gapping in prelim test: 534
Number of HSP's gapped (non-prelim): 90
length of query: 218
length of database: 14,973,337
effective HSP length: 95
effective length of query: 123
effective length of database: 9,028,427
effective search space: 1110496521
effective search space used: 1110496521
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 49 (23.5 bits)