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= 017800
(365 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 75.1 bits (183), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 77/305 (25%), Positives = 118/305 (38%), Gaps = 68/305 (22%)
Query: 42 KVLDMRM--NNFNGKIPRKFVKSCNLTSLNLNGNRLEGPLPPSLVNCHHLEVLNVGNNQI 99
K+ D+++ N G+IP++ + L +L L+ N L G +P L NC +L +++ NN++
Sbjct: 440 KLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRL 499
Query: 100 NDNFPNWLEILPELQVLILRSNRFWGPIGENTTIVPFPSLRIIDLSHNEFTGVLLTGYL- 158
P W+ L L +L L +N F G I + SL +DL+ N F G +
Sbjct: 500 TGEIPKWIGRLENLAILKLSNNSFSGNIP--AELGDCRSLIWLDLNTNLFNGTIPAAMFK 557
Query: 159 --------------------DNFKAMMHGNN-----ISVEVDYMTPLNSSNYYESIILTI 193
D K HG + + + L++ N
Sbjct: 558 QSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVY 617
Query: 194 KGIDIKMERILTIFMTIDLSSNKFQGGIPEVVGKLNLLKGLNISHNN------------- 240
G M +D+S N G IP+ +G + L LN+ HN+
Sbjct: 618 GGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLR 677
Query: 241 -------------------------LTVLNLSYNQFEGPIPRGSQFNTFPNDSYVGNSGL 275
LT ++LS N GPIP QF TFP ++ N GL
Sbjct: 678 GLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPEMGQFETFPPAKFLNNPGL 737
Query: 276 CGFPL 280
CG+PL
Sbjct: 738 CGYPL 742
Score = 60.8 bits (146), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 89/337 (26%), Positives = 145/337 (43%), Gaps = 76/337 (22%)
Query: 7 ATLYYLDLSNNFLTNIEYFPPTNMTQLNFDSNL-----------------------THKV 43
A+L LDLS N L+ P T +T L S L + +V
Sbjct: 97 ASLTSLDLSRNSLSG----PVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEV 152
Query: 44 LDMRMNNFNGKIPRKFVKS--C-NLTSLNLNGNRLEGPLP-------------------- 80
LD+ N+ +G +V S C L L ++GN++ G +
Sbjct: 153 LDLSANSISGANVVGWVLSDGCGELKHLAISGNKISGDVDVSRCVNLEFLDVSSNNFSTG 212
Query: 81 -PSLVNCHHLEVLNVGNNQINDNFPNWLEILPELQVLILRSNRFWGPIGENTTIVPFPSL 139
P L +C L+ L++ N+++ +F + EL++L + SN+F GPI +P SL
Sbjct: 213 IPFLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPP----LPLKSL 268
Query: 140 RIIDLSHNEFTGVL---LTGYLDNFKAM-MHGNNISVEVDYMTPLNSSNYYESIILTIKG 195
+ + L+ N+FTG + L+G D + + GN+ V S ++
Sbjct: 269 QYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFS 328
Query: 196 IDIKMERILTI--FMTIDLSSNKFQGGIPEVVGKLNLLKGLNISHNNLTVLNLSYNQFEG 253
++ M+ +L + +DLS N+F G +PE + L+ +L L+LS N F G
Sbjct: 329 GELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSA---------SLLTLDLSSNNFSG 379
Query: 254 PI-PRGSQ--FNTFPNDSYVGNSGLCGF--PLLESCN 285
PI P Q NT + Y+ N+G G P L +C+
Sbjct: 380 PILPNLCQNPKNTL-QELYLQNNGFTGKIPPTLSNCS 415
Score = 56.2 bits (134), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 71/259 (27%), Positives = 109/259 (42%), Gaps = 83/259 (32%)
Query: 49 NNFNGKIPRKFVKSCNLTSLNLNGNRLEGPLP--PSLVNCHHLEVLNVGNNQINDNFPNW 106
++ NG + F S +LTSL+L+ N L GP+ SL +C L+ LNV +N + +FP
Sbjct: 84 SHINGSV-SGFKCSASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTL--DFP-- 138
Query: 107 LEILPELQVLILRSNRFWGPIGENTTIVPFPSLRIIDLSHNEFTGVLLTGYL--DNFKAM 164
G+ + + SL ++DLS N +G + G++ D +
Sbjct: 139 ---------------------GKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGCGEL 177
Query: 165 MH----GNNISVEVDYMTPLNSSNYYESIILTIKGIDIKMERILTIFMTIDLSSNKFQGG 220
H GN IS +VD +N +D+SSN F G
Sbjct: 178 KHLAISGNKISGDVDVSRCVN-------------------------LEFLDVSSNNFSTG 212
Query: 221 IPEVVGKLNLLKGLNISHNNLT--------------VLNLSYNQFEGPIP----RGSQFN 262
IP +G + L+ L+IS N L+ +LN+S NQF GPIP + Q+
Sbjct: 213 IP-FLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPLPLKSLQYL 271
Query: 263 TFPNDSYVGN-----SGLC 276
+ + + G SG C
Sbjct: 272 SLAENKFTGEIPDFLSGAC 290
Score = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 83/326 (25%), Positives = 125/326 (38%), Gaps = 91/326 (27%)
Query: 6 IATLYYLDLSNNFLT---NIEYFPPTNMTQLNFDSNL-----------THKVLDMRMNNF 51
+ L +LD+S N L+ + T + LN SN + + L + N F
Sbjct: 219 CSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPLPLKSLQYLSLAENKF 278
Query: 52 NGKIPRKFVKSCN-LTSLNLNGNRLEGPLPP-------------------------SLVN 85
G+IP +C+ LT L+L+GN G +PP +L+
Sbjct: 279 TGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLK 338
Query: 86 CHHLEVLNVGNNQINDNFPNWLEIL-PELQVLILRSNRFWGPIGENTTIVPFPSLRIIDL 144
L+VL++ N+ + P L L L L L SN F GPI N P +L+ + L
Sbjct: 339 MRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYL 398
Query: 145 SHNEFTGVL--------------------------LTGYLDNFKAM-----MHGNNISVE 173
+N FTG + G L + + M I E
Sbjct: 399 QNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQE 458
Query: 174 VDYMTPLNSSNYYESIILTIKGIDIKMERIL---TIFMTIDLSSNKFQGGIPEVVGKLNL 230
+ Y+ L E++IL + ++ L T I LS+N+ G IP+ +G+L
Sbjct: 459 LMYVKTL------ETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRL-- 510
Query: 231 LKGLNISHNNLTVLNLSYNQFEGPIP 256
NL +L LS N F G IP
Sbjct: 511 --------ENLAILKLSNNSFSGNIP 528
Score = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 32/113 (28%), Positives = 54/113 (47%)
Query: 31 TQLNFDSNLTHKVLDMRMNNFNGKIPRKFVKSCNLTSLNLNGNRLEGPLPPSLVNCHHLE 90
T FD+N + LDM N +G IP++ L LNL N + G +P + + L
Sbjct: 621 TSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLN 680
Query: 91 VLNVGNNQINDNFPNWLEILPELQVLILRSNRFWGPIGENTTIVPFPSLRIID 143
+L++ +N+++ P + L L + L +N GPI E FP + ++
Sbjct: 681 ILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPEMGQFETFPPAKFLN 733
>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 = 75.1 bits (183), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 77/305 (25%), Positives = 118/305 (38%), Gaps = 68/305 (22%)
Query: 42 KVLDMRM--NNFNGKIPRKFVKSCNLTSLNLNGNRLEGPLPPSLVNCHHLEVLNVGNNQI 99
K+ D+++ N G+IP++ + L +L L+ N L G +P L NC +L +++ NN++
Sbjct: 443 KLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRL 502
Query: 100 NDNFPNWLEILPELQVLILRSNRFWGPIGENTTIVPFPSLRIIDLSHNEFTGVLLTGYL- 158
P W+ L L +L L +N F G I + SL +DL+ N F G +
Sbjct: 503 TGEIPKWIGRLENLAILKLSNNSFSGNIP--AELGDCRSLIWLDLNTNLFNGTIPAAMFK 560
Query: 159 --------------------DNFKAMMHGNN-----ISVEVDYMTPLNSSNYYESIILTI 193
D K HG + + + L++ N
Sbjct: 561 QSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVY 620
Query: 194 KGIDIKMERILTIFMTIDLSSNKFQGGIPEVVGKLNLLKGLNISHNN------------- 240
G M +D+S N G IP+ +G + L LN+ HN+
Sbjct: 621 GGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLR 680
Query: 241 -------------------------LTVLNLSYNQFEGPIPRGSQFNTFPNDSYVGNSGL 275
LT ++LS N GPIP QF TFP ++ N GL
Sbjct: 681 GLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPEMGQFETFPPAKFLNNPGL 740
Query: 276 CGFPL 280
CG+PL
Sbjct: 741 CGYPL 745
Score = 60.8 bits (146), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 89/337 (26%), Positives = 145/337 (43%), Gaps = 76/337 (22%)
Query: 7 ATLYYLDLSNNFLTNIEYFPPTNMTQLNFDSNL-----------------------THKV 43
A+L LDLS N L+ P T +T L S L + +V
Sbjct: 100 ASLTSLDLSRNSLSG----PVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEV 155
Query: 44 LDMRMNNFNGKIPRKFVKS--C-NLTSLNLNGNRLEGPLP-------------------- 80
LD+ N+ +G +V S C L L ++GN++ G +
Sbjct: 156 LDLSANSISGANVVGWVLSDGCGELKHLAISGNKISGDVDVSRCVNLEFLDVSSNNFSTG 215
Query: 81 -PSLVNCHHLEVLNVGNNQINDNFPNWLEILPELQVLILRSNRFWGPIGENTTIVPFPSL 139
P L +C L+ L++ N+++ +F + EL++L + SN+F GPI +P SL
Sbjct: 216 IPFLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPP----LPLKSL 271
Query: 140 RIIDLSHNEFTGVL---LTGYLDNFKAM-MHGNNISVEVDYMTPLNSSNYYESIILTIKG 195
+ + L+ N+FTG + L+G D + + GN+ V S ++
Sbjct: 272 QYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFS 331
Query: 196 IDIKMERILTI--FMTIDLSSNKFQGGIPEVVGKLNLLKGLNISHNNLTVLNLSYNQFEG 253
++ M+ +L + +DLS N+F G +PE + L+ +L L+LS N F G
Sbjct: 332 GELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSA---------SLLTLDLSSNNFSG 382
Query: 254 PI-PRGSQ--FNTFPNDSYVGNSGLCGF--PLLESCN 285
PI P Q NT + Y+ N+G G P L +C+
Sbjct: 383 PILPNLCQNPKNTL-QELYLQNNGFTGKIPPTLSNCS 418
Score = 56.2 bits (134), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 71/259 (27%), Positives = 109/259 (42%), Gaps = 83/259 (32%)
Query: 49 NNFNGKIPRKFVKSCNLTSLNLNGNRLEGPLP--PSLVNCHHLEVLNVGNNQINDNFPNW 106
++ NG + F S +LTSL+L+ N L GP+ SL +C L+ LNV +N + +FP
Sbjct: 87 SHINGSV-SGFKCSASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTL--DFP-- 141
Query: 107 LEILPELQVLILRSNRFWGPIGENTTIVPFPSLRIIDLSHNEFTGVLLTGYL--DNFKAM 164
G+ + + SL ++DLS N +G + G++ D +
Sbjct: 142 ---------------------GKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGCGEL 180
Query: 165 MH----GNNISVEVDYMTPLNSSNYYESIILTIKGIDIKMERILTIFMTIDLSSNKFQGG 220
H GN IS +VD +N +D+SSN F G
Sbjct: 181 KHLAISGNKISGDVDVSRCVN-------------------------LEFLDVSSNNFSTG 215
Query: 221 IPEVVGKLNLLKGLNISHNNLT--------------VLNLSYNQFEGPIP----RGSQFN 262
IP +G + L+ L+IS N L+ +LN+S NQF GPIP + Q+
Sbjct: 216 IP-FLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPLPLKSLQYL 274
Query: 263 TFPNDSYVGN-----SGLC 276
+ + + G SG C
Sbjct: 275 SLAENKFTGEIPDFLSGAC 293
Score = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 83/326 (25%), Positives = 125/326 (38%), Gaps = 91/326 (27%)
Query: 6 IATLYYLDLSNNFLT---NIEYFPPTNMTQLNFDSNL-----------THKVLDMRMNNF 51
+ L +LD+S N L+ + T + LN SN + + L + N F
Sbjct: 222 CSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPLPLKSLQYLSLAENKF 281
Query: 52 NGKIPRKFVKSCN-LTSLNLNGNRLEGPLPP-------------------------SLVN 85
G+IP +C+ LT L+L+GN G +PP +L+
Sbjct: 282 TGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLK 341
Query: 86 CHHLEVLNVGNNQINDNFPNWLEIL-PELQVLILRSNRFWGPIGENTTIVPFPSLRIIDL 144
L+VL++ N+ + P L L L L L SN F GPI N P +L+ + L
Sbjct: 342 MRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYL 401
Query: 145 SHNEFTGVL--------------------------LTGYLDNFKAM-----MHGNNISVE 173
+N FTG + G L + + M I E
Sbjct: 402 QNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQE 461
Query: 174 VDYMTPLNSSNYYESIILTIKGIDIKMERIL---TIFMTIDLSSNKFQGGIPEVVGKLNL 230
+ Y+ L E++IL + ++ L T I LS+N+ G IP+ +G+L
Sbjct: 462 LMYVKTL------ETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRL-- 513
Query: 231 LKGLNISHNNLTVLNLSYNQFEGPIP 256
NL +L LS N F G IP
Sbjct: 514 --------ENLAILKLSNNSFSGNIP 531
Score = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 32/113 (28%), Positives = 54/113 (47%)
Query: 31 TQLNFDSNLTHKVLDMRMNNFNGKIPRKFVKSCNLTSLNLNGNRLEGPLPPSLVNCHHLE 90
T FD+N + LDM N +G IP++ L LNL N + G +P + + L
Sbjct: 624 TSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLN 683
Query: 91 VLNVGNNQINDNFPNWLEILPELQVLILRSNRFWGPIGENTTIVPFPSLRIID 143
+L++ +N+++ P + L L + L +N GPI E FP + ++
Sbjct: 684 ILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPEMGQFETFPPAKFLN 736
>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 = 58.2 bits (139), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 61/237 (25%), Positives = 96/237 (40%), Gaps = 17/237 (7%)
Query: 48 MNNFNGKIPRKFVKSCNLTSLNLNGNRLEGPLPPSLVNCHHLEVLNVGNNQINDNFPNWL 107
+NN G IP K L L + + G +P L L L+ N ++ P +
Sbjct: 86 INNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSI 145
Query: 108 EILPELQVLILRSNRFWGPIGENTTIVP--FPSLRIIDLSHNEFTGVLLTGYLDNFKAMM 165
LP L + NR G I ++ F S+ I S N TG + + + A +
Sbjct: 146 SSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTI---SRNRLTGKIPPTFANLNLAFV 202
Query: 166 HGNNISVEVDYMTPLNSSNYYESIILTIKGIDIKMERI-LTIFMT-IDLSSNKFQGGIPE 223
+ +E D S + I L + + ++ L+ + +DL +N+ G +P+
Sbjct: 203 DLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIYGTLPQ 262
Query: 224 VVGKLNLLKGLNISHNNLTVLNLSYNQFEGPIPRGSQFNTFPNDSYVGNSGLCGFPL 280
+ +L L LN+S NNL G IP+G F +Y N LCG PL
Sbjct: 263 GLTQLKFLHSLNVSFNNLC----------GEIPQGGNLQRFDVSAYANNKCLCGSPL 309
>pdb|1LTX|A Chain A, Structure Of Rab Escort Protein-1 In Complex With Rab
Geranylgeranyl Transferase And Isoprenoid
Length = 567
Score = 36.6 bits (83), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 31/91 (34%), Positives = 45/91 (49%), Gaps = 14/91 (15%)
Query: 65 LTSLNLNGNRLEGPLPPSLVNCHHLEVLNVGNNQIN--DNFPNWLEILPELQVLILRSNR 122
+T L+L+ NRL LPP+L LEVL +N + D N LP LQ L+L +NR
Sbjct: 465 VTHLDLSHNRLRA-LPPALAALRCLEVLQASDNALENVDGVAN----LPRLQELLLCNNR 519
Query: 123 FWGPIGENTTIVPF---PSLRIIDLSHNEFT 150
+ ++ I P P L +++L N
Sbjct: 520 ----LQQSAAIQPLVSCPRLVLLNLQGNSLC 546
>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 = 36.6 bits (83), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 31/91 (34%), Positives = 45/91 (49%), Gaps = 14/91 (15%)
Query: 65 LTSLNLNGNRLEGPLPPSLVNCHHLEVLNVGNNQIN--DNFPNWLEILPELQVLILRSNR 122
+T L+L+ NRL LPP+L LEVL +N + D N LP LQ L+L +NR
Sbjct: 465 VTHLDLSHNRLRA-LPPALAALRCLEVLQASDNALENVDGVAN----LPRLQELLLCNNR 519
Query: 123 FWGPIGENTTIVPF---PSLRIIDLSHNEFT 150
+ ++ I P P L +++L N
Sbjct: 520 ----LQQSAAIQPLVSCPRLVLLNLQGNSLC 546
>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 = 35.8 bits (81), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 53/191 (27%), Positives = 80/191 (41%), Gaps = 46/191 (24%)
Query: 3 DLGIATLYYLDLS--------NNFL--TNIEY--FPPTNMTQLN-------------FDS 37
D G +L YLDLS +NFL +E+ F +N+ Q++ D
Sbjct: 369 DFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDI 428
Query: 38 NLTH---------------KVLDMRMNNFNGK-IPRKFVKSCNLTSLNLNGNRLEGPLPP 81
+ TH +VL M N+F +P F + NLT L+L+ +LE P
Sbjct: 429 SHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPT 488
Query: 82 SLVNCHHLEVLNVGNNQIN--DNFPNWLEILPELQVLILRSNRFWGPIGENTTIVPFPSL 139
+ + L+VLN+ +N D FP + L LQVL N + P SL
Sbjct: 489 AFNSLSSLQVLNMSHNNFFSLDTFP--YKCLNSLQVLDYSLNHIMTSKKQELQHFP-SSL 545
Query: 140 RIIDLSHNEFT 150
++L+ N+F
Sbjct: 546 AFLNLTQNDFA 556
>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 = 35.8 bits (81), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 53/191 (27%), Positives = 80/191 (41%), Gaps = 46/191 (24%)
Query: 3 DLGIATLYYLDLS--------NNFL--TNIEY--FPPTNMTQLN-------------FDS 37
D G +L YLDLS +NFL +E+ F +N+ Q++ D
Sbjct: 74 DFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDI 133
Query: 38 NLTH---------------KVLDMRMNNFNGK-IPRKFVKSCNLTSLNLNGNRLEGPLPP 81
+ TH +VL M N+F +P F + NLT L+L+ +LE P
Sbjct: 134 SHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPT 193
Query: 82 SLVNCHHLEVLNVGNNQIN--DNFPNWLEILPELQVLILRSNRFWGPIGENTTIVPFPSL 139
+ + L+VLN+ +N D FP + L LQVL N + P SL
Sbjct: 194 AFNSLSSLQVLNMSHNNFFSLDTFP--YKCLNSLQVLDYSLNHIMTSKKQELQHFP-SSL 250
Query: 140 RIIDLSHNEFT 150
++L+ N+F
Sbjct: 251 AFLNLTQNDFA 261
>pdb|1XKU|A Chain A, Crystal Structure Of The Dimeric Protein Core Of Decorin,
The Archetypal Small Leucine-Rich Repeat Proteoglycan
Length = 330
Score = 35.8 bits (81), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 36/131 (27%), Positives = 56/131 (42%), Gaps = 13/131 (9%)
Query: 5 GIATLYYLDLSNNFLTNIEYFPPTNMTQLNFDSNLTHKVLDMRMNNFNGKIPRKFVKSCN 64
G+ L Y+ +++ +T I P ++T+L+ D N KV + N N
Sbjct: 169 GMKKLSYIRIADTNITTIPQGLPPSLTELHLDGNKITKVDAASLKGLN-----------N 217
Query: 65 LTSLNLNGNRLEGPLPPSLVNCHHLEVLNVGNNQINDNFPNWLEILPELQVLILRSNRFW 124
L L L+ N + SL N HL L++ NN++ P L +QV+ L +N
Sbjct: 218 LAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKL-VKVPGGLADHKYIQVVYLHNNNIS 276
Query: 125 GPIGENTTIVP 135
IG N P
Sbjct: 277 A-IGSNDFCPP 286
>pdb|1XCD|A Chain A, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 1
pdb|1XEC|A Chain A, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 2
pdb|1XEC|B Chain B, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 2
Length = 329
Score = 35.4 bits (80), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 36/131 (27%), Positives = 56/131 (42%), Gaps = 13/131 (9%)
Query: 5 GIATLYYLDLSNNFLTNIEYFPPTNMTQLNFDSNLTHKVLDMRMNNFNGKIPRKFVKSCN 64
G+ L Y+ +++ +T I P ++T+L+ D N KV + N N
Sbjct: 169 GMKKLSYIRIADTNITTIPQGLPPSLTELHLDGNKITKVDAASLKGLN-----------N 217
Query: 65 LTSLNLNGNRLEGPLPPSLVNCHHLEVLNVGNNQINDNFPNWLEILPELQVLILRSNRFW 124
L L L+ N + SL N HL L++ NN++ P L +QV+ L +N
Sbjct: 218 LAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKL-VKVPGGLADHKYIQVVYLHNNNIS 276
Query: 125 GPIGENTTIVP 135
IG N P
Sbjct: 277 A-IGSNDFCPP 286
>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 = 35.0 bits (79), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 53/191 (27%), Positives = 80/191 (41%), Gaps = 46/191 (24%)
Query: 3 DLGIATLYYLDLS--------NNFL--TNIEY--FPPTNMTQLN-------------FDS 37
D G +L YLDLS +NFL +E+ F +N+ Q++ D
Sbjct: 393 DFGTISLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDI 452
Query: 38 NLTH---------------KVLDMRMNNFNGK-IPRKFVKSCNLTSLNLNGNRLEGPLPP 81
+ TH +VL M N+F +P F + NLT L+L+ +LE P
Sbjct: 453 SHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPT 512
Query: 82 SLVNCHHLEVLNVGNNQIN--DNFPNWLEILPELQVLILRSNRFWGPIGENTTIVPFPSL 139
+ + L+VLN+ +N D FP + L LQVL N + P SL
Sbjct: 513 AFNSLSSLQVLNMSHNNFFSLDTFP--YKCLNSLQVLDYSLNHIMTSKKQELQHFP-SSL 569
Query: 140 RIIDLSHNEFT 150
++L+ N+F
Sbjct: 570 AFLNLTQNDFA 580
>pdb|2Z7X|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 520
Score = 34.7 bits (78), Expect = 0.076, Method: Compositional matrix adjust.
Identities = 51/182 (28%), Positives = 77/182 (42%), Gaps = 32/182 (17%)
Query: 64 NLTSLNLNGNRLEGPLPPSLVN--CHHLEVLNVGNNQINDNFPNWLEILPELQVLILRSN 121
N+ + ++G R+ L PS ++ H L+ NN + D L EL+ LIL+ N
Sbjct: 303 NIKNFTVSGTRMVHMLCPSKISPFLH----LDFSNNLLTDTVFENCGHLTELETLILQMN 358
Query: 122 RF--WGPIGENTTIVPFPSLRIIDLSHNEFTGVLLTGYLDNFKAMMHGNNISVEVDYMTP 179
+ I E TT SL+ +D+S N + G K+++ N
Sbjct: 359 QLKELSKIAEMTT--QMKSLQQLDISQNSVSYDEKKGDCSWTKSLLSLNM---------- 406
Query: 180 LNSSNYYESIILTIKGIDIKMERILTIFMTIDLSSNKFQGGIPEVVGKLNLLKGLNISHN 239
SSN I IK+ +DL SNK + IP+ V KL L+ LN++ N
Sbjct: 407 --SSNILTDTIFRCLPPRIKV---------LDLHSNKIKS-IPKQVVKLEALQELNVASN 454
Query: 240 NL 241
L
Sbjct: 455 QL 456
>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 = 34.3 bits (77), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 31/60 (51%)
Query: 64 NLTSLNLNGNRLEGPLPPSLVNCHHLEVLNVGNNQINDNFPNWLEILPELQVLILRSNRF 123
N+T LNL N+L P + L +L+ G N I+ P +ILP L+VL L+ N
Sbjct: 26 NITVLNLTHNQLRRLPPTNFTRYSQLAILDAGFNSISKLEPELCQILPLLKVLNLQHNEL 85
>pdb|1W8A|A Chain A, Third Lrr Domain Of Drosophila Slit
Length = 192
Score = 33.9 bits (76), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 38/80 (47%)
Query: 44 LDMRMNNFNGKIPRKFVKSCNLTSLNLNGNRLEGPLPPSLVNCHHLEVLNVGNNQINDNF 103
L+++ N G P F + ++ L L N+++ + H L+ LN+ +NQI+
Sbjct: 59 LELKRNQLTGIEPNAFEGASHIQELQLGENKIKEISNKMFLGLHQLKTLNLYDNQISCVM 118
Query: 104 PNWLEILPELQVLILRSNRF 123
P E L L L L SN F
Sbjct: 119 PGSFEHLNSLTSLNLASNPF 138
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 33.9 bits (76), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 44/160 (27%), Positives = 69/160 (43%), Gaps = 41/160 (25%)
Query: 3 DLGIATLYYLDLS--------NNFL--TNIEY--FPPTNMTQLN-------------FDS 37
D G +L YLDLS +NFL +E+ F +N+ Q++ D
Sbjct: 369 DFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDI 428
Query: 38 NLTH---------------KVLDMRMNNFNGK-IPRKFVKSCNLTSLNLNGNRLEGPLPP 81
+ TH +VL M N+F +P F + NLT L+L+ +LE P
Sbjct: 429 SHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPT 488
Query: 82 SLVNCHHLEVLNVGNNQINDNFPNWLEILPELQVLILRSN 121
+ + L+VLN+ +NQ+ + L LQ + L +N
Sbjct: 489 AFNSLSSLQVLNMASNQLKSVPDGIFDRLTSLQKIWLHTN 528
>pdb|2WFH|A Chain A, The Human Slit 2 Dimerization Domain D4
pdb|2WFH|B Chain B, The Human Slit 2 Dimerization Domain D4
Length = 193
Score = 32.7 bits (73), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 41/144 (28%), Positives = 66/144 (45%), Gaps = 22/144 (15%)
Query: 27 PTNMTQLNFDSNLTHKVLDMRMNNFNGKIPRKFVKSCNLTSLNLNGNRLEGPLPPSLVNC 86
PT T L+ ++K L + IPR ++T L L+GN+ +P L N
Sbjct: 5 PTECTCLDTVVRCSNKGLKV----LPKGIPR------DVTELYLDGNQFTL-VPKELSNY 53
Query: 87 HHLEVLNVGNNQI----NDNFPNWLEILPELQVLILRSNRFWGPIGENTTIVPFPSLRII 142
HL ++++ NN+I N +F N ++L LIL NR T SLR++
Sbjct: 54 KHLTLIDLSNNRISTLSNQSFSNMTQLL----TLILSYNRLR--CIPPRTFDGLKSLRLL 107
Query: 143 DLSHNEFTGVLLTGYLDNFKAMMH 166
L N+ + V+ G ++ A+ H
Sbjct: 108 SLHGNDIS-VVPEGAFNDLSALSH 130
>pdb|2FL4|A Chain A, The Crystal Structure Of The SpermineSPERMIDINE
ACETYLTRANSFERASE From Enterococcus Faecalis
Length = 149
Score = 32.7 bits (73), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 35/84 (41%), Gaps = 19/84 (22%)
Query: 278 FPLLESCNIDEAPEPVGSTRFDEEEDASSWFD-----WKFAKMGYGSGLVIGLSVGYMVF 332
FP ES I + + +G + +D W D +F GYG L
Sbjct: 43 FPEWESAGIYDGNQLIGYAMYGRWQDGRVWLDRFLIDQRFQGQGYGKAACRLL------- 95
Query: 333 GTGKPRWLVRMIEKYQSNKVRIRV 356
++++IEKYQ+NK+ + V
Sbjct: 96 -------MLKLIEKYQTNKLYLSV 112
>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 = 31.2 bits (69), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 61/220 (27%), Positives = 104/220 (47%), Gaps = 21/220 (9%)
Query: 6 IATLYYLDLSNNFLTNIEYFPPTNMTQLNFDSNLTH-KVLDMRMNNFNGKIPRKFVKSCN 64
+ L LDLS+N +IE ++ QL NL+H + L++ N G + F +
Sbjct: 346 LGNLQTLDLSHN---DIEASDCCSL-QL---KNLSHLQTLNLSHNEPLGLQSQAFKECPQ 398
Query: 65 LTSLNLNGNRLEGPLPPS-LVNCHHLEVLNVGNNQINDNFPNWLEILPELQVLILRSNRF 123
L L+L RL P S N H L+VLN+ ++ + + L LP L+ L L+ N F
Sbjct: 399 LELLDLAFTRLHINAPQSPFQNLHFLQVLNLTYCFLDTSNQHLLAGLPVLRHLNLKGNHF 458
Query: 124 W-GPIGENTTIVPFPSLRIIDLSHNEFTGVLLTGYLDNFKAMMHGNNISVEVDYMT--PL 180
G I + + SL ++ LS + LL+ F ++ +++ + + +T +
Sbjct: 459 QDGTITKTNLLQTVGSLEVLILS----SCGLLSIDQQAFHSLGKMSHVDLSHNSLTCDSI 514
Query: 181 NSSNYYESIILTIKG--IDIKMERILTIF---MTIDLSSN 215
+S ++ + I L + I+I R+L I TI+LS N
Sbjct: 515 DSLSHLKGIYLNLAANSINIISPRLLPILSQQSTINLSHN 554
>pdb|3J0A|A Chain A, Homology Model Of Human Toll-Like Receptor 5 Fitted Into
An Electron Microscopy Single Particle Reconstruction
pdb|3J0A|B Chain B, Homology Model Of Human Toll-Like Receptor 5 Fitted Into
An Electron Microscopy Single Particle Reconstruction
Length = 844
Score = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 35/141 (24%), Positives = 61/141 (43%), Gaps = 15/141 (10%)
Query: 110 LPELQVLILRSNRFWGPIGENTTIVPFPSLRIIDLSHNEFTGVLLTGYL-DNFKAMMHGN 168
+P LQ+LIL NRF G+ T PSL + L N T D F+ + H
Sbjct: 425 VPHLQILILNQNRFSSCSGDQTP-SENPSLEQLFLGENMLQLAWETELCWDVFEGLSHLQ 483
Query: 169 NISVEVDYMTPLNSSNYYESIILTIKGIDIKMERILTI--------FMTIDLSSNKFQGG 220
+ + +Y+ L + S + ++G+ + R+ + +D+S N+
Sbjct: 484 VLYLNHNYLNSLPPGVF--SHLTALRGLSLNSNRLTVLSHNDLPANLEILDISRNQLLAP 541
Query: 221 IPEVVGKLNLLKGLNISHNNL 241
P+V L++ L+I+HN
Sbjct: 542 NPDVFVSLSV---LDITHNKF 559
Score = 28.9 bits (63), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 35/79 (44%), Gaps = 17/79 (21%)
Query: 88 HLEVLNVGNNQINDNFPNWLEILPELQVLILRSNRFWG-------------PIGENTTIV 134
HL+VL + +N +N P L L+ L L SNR I N +
Sbjct: 481 HLQVLYLNHNYLNSLPPGVFSHLTALRGLSLNSNRLTVLSHNDLPANLEILDISRNQLLA 540
Query: 135 P----FPSLRIIDLSHNEF 149
P F SL ++D++HN+F
Sbjct: 541 PNPDVFVSLSVLDITHNKF 559
>pdb|2Z7X|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 549
Score = 29.3 bits (64), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 35/76 (46%), Gaps = 5/76 (6%)
Query: 79 LPPSLVNCH--HLEVLNVGNNQINDNF---PNWLEILPELQVLILRSNRFWGPIGENTTI 133
L P L++ H LE L++ N + + + + P LQ LILR N T+
Sbjct: 324 LVPCLLSQHLKSLEYLDLSENLMVEEYLKNSACEDAWPSLQTLILRQNHLASLEKTGETL 383
Query: 134 VPFPSLRIIDLSHNEF 149
+ +L ID+S N F
Sbjct: 384 LTLKNLTNIDISKNSF 399
>pdb|3ULU|A Chain A, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form1)
pdb|3ULV|A Chain A, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form2)
Length = 694
Score = 28.9 bits (63), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 41/143 (28%), Positives = 60/143 (41%), Gaps = 15/143 (10%)
Query: 13 DLSNNFLTNIEYFPPTNMTQLNFDSNLTHKVLDMRMNNFNGKIPRK-FVKSCNLTSLNLN 71
D S+ LT + PTN+T LN LTH L ++P F + LTSL++
Sbjct: 20 DCSHLKLTQVPDDLPTNITVLN----LTHNQLR--------RLPAANFTRYSQLTSLDVG 67
Query: 72 GNRLEGPLPPSLVNCHHLEVLNVGNNQINDNFPNWLEILPELQVLILRSNRFWGPIGENT 131
N + P L+VLN+ +N+++ L L L SN +N
Sbjct: 68 FNTISKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSNSIQKI--KNN 125
Query: 132 TIVPFPSLRIIDLSHNEFTGVLL 154
V +L +DLSHN + L
Sbjct: 126 PFVKQKNLITLDLSHNGLSSTKL 148
>pdb|2JE0|A Chain A, Crystal Structure Of Pp32
pdb|2JE0|B Chain B, Crystal Structure Of Pp32
pdb|2JE0|C Chain C, Crystal Structure Of Pp32
pdb|2JE0|D Chain D, Crystal Structure Of Pp32
pdb|2JE0|E Chain E, Crystal Structure Of Pp32
pdb|2JE0|F Chain F, Crystal Structure Of Pp32
pdb|2JE1|A Chain A, The Crystal Structure Of The Tumor Supressor Protein Pp32
( Anp32a):structural Insights Into The Anp32 Family Of
Proteins
pdb|2JE1|B Chain B, The Crystal Structure Of The Tumor Supressor Protein Pp32
( Anp32a):structural Insights Into The Anp32 Family Of
Proteins
pdb|2JE1|C Chain C, The Crystal Structure Of The Tumor Supressor Protein Pp32
( Anp32a):structural Insights Into The Anp32 Family Of
Proteins
pdb|2JE1|D Chain D, The Crystal Structure Of The Tumor Supressor Protein Pp32
( Anp32a):structural Insights Into The Anp32 Family Of
Proteins
Length = 149
Score = 28.9 bits (63), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 36/73 (49%), Gaps = 6/73 (8%)
Query: 49 NNFNGKIPRKFVKSCNLTSLNLNGNRLEG-----PLPPSLVNCHHLEVLNVGNNQINDNF 103
N +G + K NLT LNL+GN+++ PL L N L++ N +ND
Sbjct: 74 NRVSGGLEVLAEKCPNLTHLNLSGNKIKDLSTIEPL-KKLENLKSLDLFNCEVTNLNDYR 132
Query: 104 PNWLEILPELQVL 116
N ++LP+L L
Sbjct: 133 ENVFKLLPQLTYL 145
>pdb|2A0Z|A Chain A, The Molecular Structure Of Toll-like Receptor 3 Ligand
Binding Domain
Length = 705
Score = 28.9 bits (63), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 41/143 (28%), Positives = 60/143 (41%), Gaps = 15/143 (10%)
Query: 13 DLSNNFLTNIEYFPPTNMTQLNFDSNLTHKVLDMRMNNFNGKIPRK-FVKSCNLTSLNLN 71
D S+ LT + PTN+T LN LTH L ++P F + LTSL++
Sbjct: 15 DCSHLKLTQVPDDLPTNITVLN----LTHNQLR--------RLPAANFTRYSQLTSLDVG 62
Query: 72 GNRLEGPLPPSLVNCHHLEVLNVGNNQINDNFPNWLEILPELQVLILRSNRFWGPIGENT 131
N + P L+VLN+ +N+++ L L L SN +N
Sbjct: 63 FNTISKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSNSIQKI--KNN 120
Query: 132 TIVPFPSLRIIDLSHNEFTGVLL 154
V +L +DLSHN + L
Sbjct: 121 PFVKQKNLITLDLSHNGLSSTKL 143
>pdb|1ZIW|A Chain A, Human Toll-Like Receptor 3 Extracellular Domain Structure
Length = 680
Score = 28.9 bits (63), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 41/143 (28%), Positives = 60/143 (41%), Gaps = 15/143 (10%)
Query: 13 DLSNNFLTNIEYFPPTNMTQLNFDSNLTHKVLDMRMNNFNGKIPRK-FVKSCNLTSLNLN 71
D S+ LT + PTN+T LN LTH L ++P F + LTSL++
Sbjct: 10 DCSHLKLTQVPDDLPTNITVLN----LTHNQLR--------RLPAANFTRYSQLTSLDVG 57
Query: 72 GNRLEGPLPPSLVNCHHLEVLNVGNNQINDNFPNWLEILPELQVLILRSNRFWGPIGENT 131
N + P L+VLN+ +N+++ L L L SN +N
Sbjct: 58 FNTISKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSNSIQKI--KNN 115
Query: 132 TIVPFPSLRIIDLSHNEFTGVLL 154
V +L +DLSHN + L
Sbjct: 116 PFVKQKNLITLDLSHNGLSSTKL 138
>pdb|4IFD|G Chain G, Crystal Structure Of An 11-subunit Eukaryotic Exosome
Complex Bound To Rna
Length = 242
Score = 28.9 bits (63), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 38/81 (46%), Gaps = 2/81 (2%)
Query: 104 PNWLEILPELQVLILRSNRFWGPIGENTTIVPFPSLRIIDLSHNEFTGVLLTGYLDNFKA 163
PN EI P ++ S + G G T + + S R I ++ GV++ + D++K
Sbjct: 31 PNTQEIRPVNTGVLHVSAK--GKSGVQTAYIDYSSKRYIPSVNDFVIGVIIGTFSDSYKV 88
Query: 164 MMHGNNISVEVDYMTPLNSSN 184
+ + SV + YM N+S
Sbjct: 89 SLQNFSSSVSLSYMAFPNASK 109
>pdb|3OJA|B Chain B, Crystal Structure Of Lrim1APL1C COMPLEX
Length = 597
Score = 28.5 bits (62), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 42/177 (23%), Positives = 73/177 (41%), Gaps = 42/177 (23%)
Query: 9 LYYLDLSNNFLTNIE---YFPPTNMTQLNFDSN-LTHKVLDMRMNNFNGKIPRKFVKSC- 63
L L +SNN L IE + T++ L SN LTH L + + F+ + + +
Sbjct: 149 LTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSYNLLSTLA 208
Query: 64 ------NLTSLNLNGNRLEGPLPPSLVNCHHLEVLNVGNNQIND-----NFPNWLEI--- 109
L + + + N + GP+ L +L + +N + D N+P +E+
Sbjct: 209 IPIAVEELDASHNSINVVRGPVNVELT------ILKLQHNNLTDTAWLLNYPGLVEVDLS 262
Query: 110 --------------LPELQVLILRSNRFWGPIGENTTIVPFPSLRIIDLSHNEFTGV 152
+ L+ L + +NR + N P P+L+++DLSHN V
Sbjct: 263 YNELEKIMYHPFVKMQRLERLYISNNRL---VALNLYGQPIPTLKVLDLSHNHLLHV 316
>pdb|3BZ5|A Chain A, Functional Domain Of Inlj From Listeria Monocytogenes
Includes A Cysteine Ladder
Length = 457
Score = 28.5 bits (62), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 24/41 (58%), Gaps = 1/41 (2%)
Query: 9 LYYLDLSNNFLTNIEYFPPTNMTQLNFDSNLTHKVLDMRMN 49
L YL +N LTN++ P T +T LN D+N K LD+ N
Sbjct: 87 LTYLACDSNKLTNLDVTPLTKLTYLNCDTNKLTK-LDVSQN 126
>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 = 28.5 bits (62), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 34/119 (28%), Positives = 52/119 (43%), Gaps = 21/119 (17%)
Query: 157 YLDNFKAMMHGNNISVEVDYMTPLNSSNYYESIILT---IKGIDIKMERILTIFMTIDLS 213
YL N + + G N ++ + L + Y +ILT ++ + + LT + L
Sbjct: 61 YLPNVRYLALGGNKLHDISALKELTNLTY---LILTGNQLQSLPNGVFDKLTNLKELVLV 117
Query: 214 SNKFQGGIPEVVGKLNLLKGLNISHN--------------NLTVLNLSYNQFEGPIPRG 258
N+ Q V KL L LN++HN NLT L+LSYNQ + +P G
Sbjct: 118 ENQLQSLPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQLQS-LPEG 175
>pdb|1M10|B Chain B, Crystal Structure Of The Complex Of Glycoprotein Ib Alpha
And The Von Willebrand Factor A1 Domain
Length = 290
Score = 28.5 bits (62), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 40/84 (47%), Gaps = 4/84 (4%)
Query: 43 VLDMRMNNFNGKIPRKFVKSC-NLTSLNLNGNRLEGPLPPSLVN-CHHLEVLNVGNNQIN 100
VLD+ N +P ++ L L L GN L+ LPP L+ LE L++ NNQ+
Sbjct: 104 VLDVSFNRLTS-LPLGALRGLGELQELYLKGNELKT-LPPGLLTPTPKLEKLSLANNQLT 161
Query: 101 DNFPNWLEILPELQVLILRSNRFW 124
+ L L L L+L+ N +
Sbjct: 162 ELPAGLLNGLENLDTLLLQENSLY 185
>pdb|4FHO|A Chain A, Crystal Structure Of An Internalin C2 (Inlc2) From
Listeria Monocytogenes Str. 4b F2365 At 1.90 A
Resolution
pdb|4FHO|B Chain B, Crystal Structure Of An Internalin C2 (Inlc2) From
Listeria Monocytogenes Str. 4b F2365 At 1.90 A
Resolution
Length = 231
Score = 28.1 bits (61), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 31/111 (27%), Positives = 49/111 (44%), Gaps = 10/111 (9%)
Query: 42 KVLDMRMNNFNGKIPRKFVKSCNLTSLNLNGNRLEGPLPPSLVNCHHLEVLNVGNNQIND 101
K LD+ P NL L L+ N++ P L +L+ L++GNNQ+ND
Sbjct: 116 KTLDLTSTQITDVTP--LAGLSNLQVLYLDLNQITNISP--LAGLTNLQYLSIGNNQVND 171
Query: 102 NFPNWLEILPELQVLILRSNRFWGPIGENTTIVPFPSLRIIDLSHNEFTGV 152
P L L +L L N+ I + + + P+L + L N+ + V
Sbjct: 172 LTP--LANLSKLTTLRADDNK----ISDISPLASLPNLIEVHLKDNQISDV 216
>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 = 28.1 bits (61), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 40/84 (47%), Gaps = 4/84 (4%)
Query: 43 VLDMRMNNFNGKIPRKFVKSC-NLTSLNLNGNRLEGPLPPSLVN-CHHLEVLNVGNNQIN 100
VLD+ N +P ++ L L L GN L+ LPP L+ LE L++ NNQ+
Sbjct: 104 VLDVSFNRLTS-LPLGALRGLGELQELYLKGNELKT-LPPGLLTPTPKLEKLSLANNQLT 161
Query: 101 DNFPNWLEILPELQVLILRSNRFW 124
+ L L L L+L+ N +
Sbjct: 162 ELPAGLLNGLENLDTLLLQENSLY 185
>pdb|2OMX|A Chain A, Crystal Structure Of Inla S192n G194s+sHEC1 COMPLEX
Length = 462
Score = 28.1 bits (61), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 48/180 (26%), Positives = 86/180 (47%), Gaps = 23/180 (12%)
Query: 5 GIATLYYLDLSNNFLTNIEYFPPTNMTQLNFDSNLTHKVLDM----RMNNFNGKIPRKFV 60
G+ +L L+ S+N +T+++ P N+T L ++KV D+ ++ N I
Sbjct: 149 GLTSLQQLNFSSNQVTDLK--PLANLTTLERLDISSNKVSDISVLAKLTNLESLIATNNQ 206
Query: 61 KS--------CNLTSLNLNGNRLEGPLPPSLVNCHHLEVLNVGNNQINDNFPNWLEILPE 112
S NL L+LNGN+L+ +L + +L L++ NNQI++ P L L +
Sbjct: 207 ISDITPLGILTNLDELSLNGNQLKD--IGTLASLTNLTDLDLANNQISNLAP--LSGLTK 262
Query: 113 LQVLILRSNRFWGPIGENTTIVPFPSLRIIDLSHNEFTGVLLTGYLDNFKAM-MHGNNIS 171
L L L +N+ I + + +L ++L+ N+ + L N + ++ NNIS
Sbjct: 263 LTELKLGANQ----ISNISPLAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFNNIS 318
>pdb|3O6N|A Chain A, Crystal Structure Of Apl1 Leucine-Rich Repeat Domain
Length = 390
Score = 28.1 bits (61), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 43/174 (24%), Positives = 73/174 (41%), Gaps = 42/174 (24%)
Query: 12 LDLSNNFLTNIE---YFPPTNMTQLNFDSN-LTHKVLDMRMNNFNGKIPRKFVKSC---- 63
L +SNN L IE + T++ L SN LTH L + + F+ + + +
Sbjct: 146 LSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSYNLLSTLAIPI 205
Query: 64 ---NLTSLNLNGNRLEGPLPPSLVNCHHLEVLNVGNNQIND-----NFPNWLEI------ 109
L + + + N + GP VN L +L + +N + D N+P +E+
Sbjct: 206 AVEELDASHNSINVVRGP-----VNVE-LTILKLQHNNLTDTAWLLNYPGLVEVDLSYNE 259
Query: 110 -----------LPELQVLILRSNRFWGPIGENTTIVPFPSLRIIDLSHNEFTGV 152
+ L+ L + +NR + N P P+L+++DLSHN V
Sbjct: 260 LEKIMYHPFVKMQRLERLYISNNRL---VALNLYGQPIPTLKVLDLSHNHLLHV 310
>pdb|3RG1|A Chain A, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|E Chain E, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|I Chain I, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|M Chain M, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|B Chain B, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|F Chain F, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|J Chain J, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|N Chain N, Crystal Structure Of The Rp105MD-1 Complex
Length = 612
Score = 27.7 bits (60), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 41/83 (49%), Gaps = 12/83 (14%)
Query: 6 IATLYYLDLSNNFLTNI---EYFPPTNMTQLNFDSNLTHKVLDMRMNNFNGKIPRKFVKS 62
+ L L L +N +++I E FP N+ L+F +N H + + K ++
Sbjct: 127 LENLESLHLGSNHISSINLPENFPTQNLKVLDFQNNAIHYI--------SRKDTNSLEQA 178
Query: 63 CNLTSLNLNGNRLEGPLPPSLVN 85
NL SLN NGN ++G P + ++
Sbjct: 179 TNL-SLNFNGNDIKGIEPGAFIS 200
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.320 0.139 0.425
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,680,702
Number of Sequences: 62578
Number of extensions: 523658
Number of successful extensions: 1416
Number of sequences better than 100.0: 102
Number of HSP's better than 100.0 without gapping: 25
Number of HSP's successfully gapped in prelim test: 77
Number of HSP's that attempted gapping in prelim test: 1108
Number of HSP's gapped (non-prelim): 271
length of query: 365
length of database: 14,973,337
effective HSP length: 100
effective length of query: 265
effective length of database: 8,715,537
effective search space: 2309617305
effective search space used: 2309617305
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 52 (24.6 bits)