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= 041121
(574 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 = 125 bits (314), Expect = 6e-29, Method: Compositional matrix adjust.
Identities = 145/499 (29%), Positives = 215/499 (43%), Gaps = 84/499 (16%)
Query: 68 NQLQGSIP-DSSQHMVYLEHLSLMFNELEGGIPKFFGNM------LNLSDNKLA--IIQN 118
N G +P D+ M L+ L L FNE G +P+ N+ L+LS N + I+ N
Sbjct: 328 NNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPN 387
Query: 119 MSSGCLKNSLESLHLEVNHFTGPIP-DLGGFSSMKRLYLSDNLLNGTINKSIGQIFKLEI 177
+ KN+L+ L+L+ N FTG IP L S + L+LS N L+GTI S+G + KL
Sbjct: 388 LCQNP-KNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRD 446
Query: 178 TCLSQNSLTDLANIQIKGKLPDLSSRFGTSNPGIDISSNHFEGPIXXXXXXXXXXXXXXX 237
L N L +G++P T I + N G I
Sbjct: 447 LKLWLNML--------EGEIPQELMYVKTLETLI-LDFNDLTGEIPSGLSNCT------- 490
Query: 238 XXXXXXXXXXXXXXKLTYIDLSSNLLSGKLPDCWWMFDSLVILDLGNNSFSGRIPDSMGF 297
L +I LS+N L+G++P ++L IL L NNSFSG IP +G
Sbjct: 491 --------------NLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGD 536
Query: 298 LXXXXXXXXXXXXXXXTVFIVWELLTTQTFESWEERFVRLKSNKFHGKTPFQLCQFAFLQ 357
++W + L +N F+G P + F Q
Sbjct: 537 CRS----------------LIW---------------LDLNTNLFNGTIPAAM----FKQ 561
Query: 358 VLDLSLNNISGKIPKCFNNFTAMTQERSSDPTIKVYYYTFVGPPYVHHYSFQDKVMPTWK 417
++ N I+GK N M +E + + + ++ S ++ T +
Sbjct: 562 SGKIAANFIAGKRYVYIKN-DGMKKECHG--AGNLLEFQGIRSEQLNRLSTRNPCNITSR 618
Query: 418 GSGREYRSTL---GLIKSLELSSNKLNGAVPEEIMDLVGLVALNLSRNHLTGQNSPKIGQ 474
G T G + L++S N L+G +P+EI + L LNL N ++G ++G
Sbjct: 619 VYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGD 678
Query: 475 LKSLDFLDLSRNQLVGGIXXXXXXXXXXXXMDLSYNNLSGKIPTGTQLQSFNGSVYAGNP 534
L+ L+ LDLS N+L G I +DLS NNLSG IP Q ++F + + NP
Sbjct: 679 LRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPEMGQFETFPPAKFLNNP 738
Query: 535 ELCGLPLPNKCRDEESAPG 553
LCG PLP +C D +A G
Sbjct: 739 GLCGYPLP-RC-DPSNADG 755
Score = 77.8 bits (190), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 130/509 (25%), Positives = 196/509 (38%), Gaps = 122/509 (23%)
Query: 57 SSNFVSIDLSFNQLQGSIPDSSQHMVYLEHLSLMFNELEGGIPKFFGNMLNLSDNKLAII 116
S++ S+DLS N L G + + L S + KF LN+S N L
Sbjct: 99 SASLTSLDLSRNSLSGPV----TTLTSLGSCSGL---------KF----LNVSSNTLDFP 141
Query: 117 QNMSSGCLKNSLESLHLEVNHFTGP------IPDLGGFSSMKRLYLSDNLLNGTINKSIG 170
+S G NSLE L L N +G + D G +K L +S N ++G ++ +
Sbjct: 142 GKVSGGLKLNSLEVLDLSANSISGANVVGWVLSD--GCGELKHLAISGNKISGDVD--VS 197
Query: 171 QIFKLEITCLSQNSLTD----------LANIQIKG-KLP-DLSSRFGTSN--PGIDISSN 216
+ LE +S N+ + L ++ I G KL D S T ++ISSN
Sbjct: 198 RCVNLEFLDVSSNNFSTGIPFLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSN 257
Query: 217 HFEGPIXXXXXXXXXXXXXXXXXXXXXXXXXXXXXKLTYIDLSSNLLSGKLPDCW-WMFD 275
F GPI L Y+ L+ N +G++PD D
Sbjct: 258 QFVGPIPPLPLK-----------------------SLQYLSLAENKFTGEIPDFLSGACD 294
Query: 276 SLVILDLGNNSFSGRIPDSMGFLXXXXXXXXXXXXXXXTVFIVWELLTTQTFESWEERFV 335
+L LDL N F G +P G +
Sbjct: 295 TLTGLDLSGNHFYGAVPPFFG-------------------------------SCSLLESL 323
Query: 336 RLKSNKFHGKTPFQ-LCQFAFLQVLDLSLNNISGKIPKCFNNFTA--MTQERSSD----- 387
L SN F G+ P L + L+VLDLS N SG++P+ N +A +T + SS+
Sbjct: 324 ALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGP 383
Query: 388 --PTIKVYYYTFVGPPYVHHYSFQDKVMPTWK----------------GSGREYRSTLGL 429
P + + Y+ + F K+ PT G+ +L
Sbjct: 384 ILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSK 443
Query: 430 IKSLELSSNKLNGAVPEEIMDLVGLVALNLSRNHLTGQNSPKIGQLKSLDFLDLSRNQLV 489
++ L+L N L G +P+E+M + L L L N LTG+ + +L+++ LS N+L
Sbjct: 444 LRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLT 503
Query: 490 GGIXXXXXXXXXXXXMDLSYNNLSGKIPT 518
G I + LS N+ SG IP
Sbjct: 504 GEIPKWIGRLENLAILKLSNNSFSGNIPA 532
Score = 55.5 bits (132), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 62/203 (30%), Positives = 94/203 (46%), Gaps = 44/203 (21%)
Query: 53 LSNISSNFVSIDLSFNQLQGSI-------PDSSQHMVYLEH------------------- 86
L+N+S++ +++DLS N G I P ++ +YL++
Sbjct: 363 LTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVS 422
Query: 87 LSLMFNELEGGIPKFFGNMLNLSDNKLAIIQNMSSGCLKN------SLESLHLEVNHFTG 140
L L FN L G IP G++ L D KL + NM G + +LE+L L+ N TG
Sbjct: 423 LHLSFNYLSGTIPSSLGSLSKLRDLKLWL--NMLEGEIPQELMYVKTLETLILDFNDLTG 480
Query: 141 PIPD-LGGFSSMKRLYLSDNLLNGTINKSIGQIFKLEITCLSQNSLTDLANIQIKGKLPD 199
IP L +++ + LS+N L G I K IG++ L I LS NS + I +L D
Sbjct: 481 EIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSG----NIPAELGD 536
Query: 200 LSSRFGTSNPGIDISSNHFEGPI 222
S +D+++N F G I
Sbjct: 537 CRSLI-----WLDLNTNLFNGTI 554
Score = 52.8 bits (125), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 37/95 (38%), Positives = 53/95 (55%), Gaps = 10/95 (10%)
Query: 63 IDLSFNQLQGSIPDSSQHMVYLEHLSLMFNELEGGIPKFFG-----NMLNLSDNKL--AI 115
+D+S+N L G IP M YL L+L N++ G IP G N+L+LS NKL I
Sbjct: 637 LDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRI 696
Query: 116 IQNMSSGCLKNSLESLHLEVNHFTGPIPDLGGFSS 150
Q MS+ + L + L N+ +GPIP++G F +
Sbjct: 697 PQAMSALTM---LTEIDLSNNNLSGPIPEMGQFET 728
Score = 35.8 bits (81), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 51/195 (26%), Positives = 74/195 (37%), Gaps = 34/195 (17%)
Query: 331 EERFVRLKSNKFHGKTPFQLCQFAFLQVLDLSLNNISGKIPKCFNNFTAMTQERSSDPTI 390
E + + + NK G C L+ LD+S NN S IP
Sbjct: 179 ELKHLAISGNKISGDVDVSRC--VNLEFLDVSSNNFSTGIP------------------- 217
Query: 391 KVYYYTFVGP-PYVHHYSFQDKVMPTWKGSGREYRSTLGLIKSLELSSNKLNGAVPEEIM 449
F+G + H + G ST +K L +SSN+ G +P +
Sbjct: 218 ------FLGDCSALQHLDISGNKL---SGDFSRAISTCTELKLLNISSNQFVGPIPP--L 266
Query: 450 DLVGLVALNLSRNHLTGQNSPKI-GQLKSLDFLDLSRNQLVGGIXXXXXXXXXXXXMDLS 508
L L L+L+ N TG+ + G +L LDLS N G + + LS
Sbjct: 267 PLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALS 326
Query: 509 YNNLSGKIPTGTQLQ 523
NN SG++P T L+
Sbjct: 327 SNNFSGELPMDTLLK 341
>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 = 125 bits (314), Expect = 7e-29, Method: Compositional matrix adjust.
Identities = 145/499 (29%), Positives = 215/499 (43%), Gaps = 84/499 (16%)
Query: 68 NQLQGSIP-DSSQHMVYLEHLSLMFNELEGGIPKFFGNM------LNLSDNKLA--IIQN 118
N G +P D+ M L+ L L FNE G +P+ N+ L+LS N + I+ N
Sbjct: 325 NNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPN 384
Query: 119 MSSGCLKNSLESLHLEVNHFTGPIP-DLGGFSSMKRLYLSDNLLNGTINKSIGQIFKLEI 177
+ KN+L+ L+L+ N FTG IP L S + L+LS N L+GTI S+G + KL
Sbjct: 385 LCQNP-KNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRD 443
Query: 178 TCLSQNSLTDLANIQIKGKLPDLSSRFGTSNPGIDISSNHFEGPIXXXXXXXXXXXXXXX 237
L N L +G++P T I + N G I
Sbjct: 444 LKLWLNML--------EGEIPQELMYVKTLETLI-LDFNDLTGEIPSGLSNCT------- 487
Query: 238 XXXXXXXXXXXXXXKLTYIDLSSNLLSGKLPDCWWMFDSLVILDLGNNSFSGRIPDSMGF 297
L +I LS+N L+G++P ++L IL L NNSFSG IP +G
Sbjct: 488 --------------NLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGD 533
Query: 298 LXXXXXXXXXXXXXXXTVFIVWELLTTQTFESWEERFVRLKSNKFHGKTPFQLCQFAFLQ 357
++W + L +N F+G P + F Q
Sbjct: 534 CRS----------------LIW---------------LDLNTNLFNGTIPAAM----FKQ 558
Query: 358 VLDLSLNNISGKIPKCFNNFTAMTQERSSDPTIKVYYYTFVGPPYVHHYSFQDKVMPTWK 417
++ N I+GK N M +E + + + ++ S ++ T +
Sbjct: 559 SGKIAANFIAGKRYVYIKN-DGMKKECHG--AGNLLEFQGIRSEQLNRLSTRNPCNITSR 615
Query: 418 GSGREYRSTL---GLIKSLELSSNKLNGAVPEEIMDLVGLVALNLSRNHLTGQNSPKIGQ 474
G T G + L++S N L+G +P+EI + L LNL N ++G ++G
Sbjct: 616 VYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGD 675
Query: 475 LKSLDFLDLSRNQLVGGIXXXXXXXXXXXXMDLSYNNLSGKIPTGTQLQSFNGSVYAGNP 534
L+ L+ LDLS N+L G I +DLS NNLSG IP Q ++F + + NP
Sbjct: 676 LRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPEMGQFETFPPAKFLNNP 735
Query: 535 ELCGLPLPNKCRDEESAPG 553
LCG PLP +C D +A G
Sbjct: 736 GLCGYPLP-RC-DPSNADG 752
Score = 77.4 bits (189), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 130/509 (25%), Positives = 196/509 (38%), Gaps = 122/509 (23%)
Query: 57 SSNFVSIDLSFNQLQGSIPDSSQHMVYLEHLSLMFNELEGGIPKFFGNMLNLSDNKLAII 116
S++ S+DLS N L G + + L S + KF LN+S N L
Sbjct: 96 SASLTSLDLSRNSLSGPV----TTLTSLGSCSGL---------KF----LNVSSNTLDFP 138
Query: 117 QNMSSGCLKNSLESLHLEVNHFTGP------IPDLGGFSSMKRLYLSDNLLNGTINKSIG 170
+S G NSLE L L N +G + D G +K L +S N ++G ++ +
Sbjct: 139 GKVSGGLKLNSLEVLDLSANSISGANVVGWVLSD--GCGELKHLAISGNKISGDVD--VS 194
Query: 171 QIFKLEITCLSQNSLTD----------LANIQIKG-KLP-DLSSRFGTSN--PGIDISSN 216
+ LE +S N+ + L ++ I G KL D S T ++ISSN
Sbjct: 195 RCVNLEFLDVSSNNFSTGIPFLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSN 254
Query: 217 HFEGPIXXXXXXXXXXXXXXXXXXXXXXXXXXXXXKLTYIDLSSNLLSGKLPDCW-WMFD 275
F GPI L Y+ L+ N +G++PD D
Sbjct: 255 QFVGPIPPLPLK-----------------------SLQYLSLAENKFTGEIPDFLSGACD 291
Query: 276 SLVILDLGNNSFSGRIPDSMGFLXXXXXXXXXXXXXXXTVFIVWELLTTQTFESWEERFV 335
+L LDL N F G +P G +
Sbjct: 292 TLTGLDLSGNHFYGAVPPFFG-------------------------------SCSLLESL 320
Query: 336 RLKSNKFHGKTPFQ-LCQFAFLQVLDLSLNNISGKIPKCFNNFTA--MTQERSSD----- 387
L SN F G+ P L + L+VLDLS N SG++P+ N +A +T + SS+
Sbjct: 321 ALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGP 380
Query: 388 --PTIKVYYYTFVGPPYVHHYSFQDKVMPTWK----------------GSGREYRSTLGL 429
P + + Y+ + F K+ PT G+ +L
Sbjct: 381 ILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSK 440
Query: 430 IKSLELSSNKLNGAVPEEIMDLVGLVALNLSRNHLTGQNSPKIGQLKSLDFLDLSRNQLV 489
++ L+L N L G +P+E+M + L L L N LTG+ + +L+++ LS N+L
Sbjct: 441 LRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLT 500
Query: 490 GGIXXXXXXXXXXXXMDLSYNNLSGKIPT 518
G I + LS N+ SG IP
Sbjct: 501 GEIPKWIGRLENLAILKLSNNSFSGNIPA 529
Score = 55.5 bits (132), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 62/203 (30%), Positives = 94/203 (46%), Gaps = 44/203 (21%)
Query: 53 LSNISSNFVSIDLSFNQLQGSI-------PDSSQHMVYLEH------------------- 86
L+N+S++ +++DLS N G I P ++ +YL++
Sbjct: 360 LTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVS 419
Query: 87 LSLMFNELEGGIPKFFGNMLNLSDNKLAIIQNMSSGCLKN------SLESLHLEVNHFTG 140
L L FN L G IP G++ L D KL + NM G + +LE+L L+ N TG
Sbjct: 420 LHLSFNYLSGTIPSSLGSLSKLRDLKLWL--NMLEGEIPQELMYVKTLETLILDFNDLTG 477
Query: 141 PIPD-LGGFSSMKRLYLSDNLLNGTINKSIGQIFKLEITCLSQNSLTDLANIQIKGKLPD 199
IP L +++ + LS+N L G I K IG++ L I LS NS + I +L D
Sbjct: 478 EIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSG----NIPAELGD 533
Query: 200 LSSRFGTSNPGIDISSNHFEGPI 222
S +D+++N F G I
Sbjct: 534 CRSLI-----WLDLNTNLFNGTI 551
Score = 52.4 bits (124), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 37/95 (38%), Positives = 53/95 (55%), Gaps = 10/95 (10%)
Query: 63 IDLSFNQLQGSIPDSSQHMVYLEHLSLMFNELEGGIPKFFG-----NMLNLSDNKL--AI 115
+D+S+N L G IP M YL L+L N++ G IP G N+L+LS NKL I
Sbjct: 634 LDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRI 693
Query: 116 IQNMSSGCLKNSLESLHLEVNHFTGPIPDLGGFSS 150
Q MS+ + L + L N+ +GPIP++G F +
Sbjct: 694 PQAMSALTM---LTEIDLSNNNLSGPIPEMGQFET 725
Score = 35.8 bits (81), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 51/195 (26%), Positives = 74/195 (37%), Gaps = 34/195 (17%)
Query: 331 EERFVRLKSNKFHGKTPFQLCQFAFLQVLDLSLNNISGKIPKCFNNFTAMTQERSSDPTI 390
E + + + NK G C L+ LD+S NN S IP
Sbjct: 176 ELKHLAISGNKISGDVDVSRC--VNLEFLDVSSNNFSTGIP------------------- 214
Query: 391 KVYYYTFVGP-PYVHHYSFQDKVMPTWKGSGREYRSTLGLIKSLELSSNKLNGAVPEEIM 449
F+G + H + G ST +K L +SSN+ G +P +
Sbjct: 215 ------FLGDCSALQHLDISGNKL---SGDFSRAISTCTELKLLNISSNQFVGPIPP--L 263
Query: 450 DLVGLVALNLSRNHLTGQNSPKI-GQLKSLDFLDLSRNQLVGGIXXXXXXXXXXXXMDLS 508
L L L+L+ N TG+ + G +L LDLS N G + + LS
Sbjct: 264 PLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALS 323
Query: 509 YNNLSGKIPTGTQLQ 523
NN SG++P T L+
Sbjct: 324 SNNFSGELPMDTLLK 338
>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 = 73.6 bits (179), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 69/234 (29%), Positives = 99/234 (42%), Gaps = 41/234 (17%)
Query: 340 NKFHGKTPFQLCQFAFLQVLDLSLNNISGKIPKCFNNFTAMTQERSSDPTIKVYYYTFVG 399
N G P + + L L ++ N+SG IP + + T+ Y G
Sbjct: 87 NNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLV-------TLDFSYNALSG 139
Query: 400 --PPYVHHYSFQDKVMPTWKG---SGR---EYRSTLGLIKSLELSSNKLNGAVPEEIMDL 451
PP + S + V T+ G SG Y S L S+ +S N+L G +P +L
Sbjct: 140 TLPPSIS--SLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANL 197
Query: 452 VGLVALNLSRNHLTGQNSP-----------------------KIGQLKSLDFLDLSRNQL 488
L ++LSRN L G S K+G K+L+ LDL N++
Sbjct: 198 -NLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRI 256
Query: 489 VGGIXXXXXXXXXXXXMDLSYNNLSGKIPTGTQLQSFNGSVYAGNPELCGLPLP 542
G + +++S+NNL G+IP G LQ F+ S YA N LCG PLP
Sbjct: 257 YGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVSAYANNKCLCGSPLP 310
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 53/239 (22%), Positives = 89/239 (37%), Gaps = 39/239 (16%)
Query: 135 VNHFTGPIPD-LGGFSSMKRLYLSDNLLNGTINKSIGQIFKLEITCLSQNSLTDLANIQI 193
+N+ GPIP + + + LY++ ++G I + QI L S N+L+ I
Sbjct: 86 INNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSI 145
Query: 194 KGKLPDLSSRFGTSNPGIDISSNHFEGPIXXXXXXXXXXXXXXXXXXXXXXXXXXXXXKL 253
LP+L GI N G I
Sbjct: 146 S-SLPNLV--------GITFDGNRISGAIPDSYGSFSKL--------------------F 176
Query: 254 TYIDLSSNLLSGKLPDCWWMFDSLVILDLGNNSFSGRIPDSMGFLXXXXXXXXXXXXXXX 313
T + +S N L+GK+P + + L +DL N G D+
Sbjct: 177 TSMTISRNRLTGKIPPTFANLN-LAFVDLSRNMLEG---DASVLFGSDKNTQKIHLAKNS 232
Query: 314 TVFIVWELLTTQTFESWEERFVRLKSNKFHGKTPFQLCQFAFLQVLDLSLNNISGKIPK 372
F + ++ ++ + L++N+ +G P L Q FL L++S NN+ G+IP+
Sbjct: 233 LAFDLGKVGLSKNLNGLD-----LRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQ 286
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 60/245 (24%), Positives = 101/245 (41%), Gaps = 45/245 (18%)
Query: 252 KLTYIDLSSNLLSGKLPDCWWMFDSLVILDLGNNSFSGRIPDSMGFLXXXXXXXXXXXXX 311
+L Y+ ++ +SG +PD +LV LD N+ SG +P S+ L
Sbjct: 102 QLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPN----------- 150
Query: 312 XXTVFIVWELLTTQTFESWEERFVRLKSNKFHGKTPFQLCQFAFL-QVLDLSLNNISGKI 370
L TF+ N+ G P F+ L + +S N ++GKI
Sbjct: 151 ----------LVGITFD----------GNRISGAIPDSYGSFSKLFTSMTISRNRLTGKI 190
Query: 371 PKCFNNFTAMTQERSSDPTIKVYYYTFVGPPYVHHYSFQD-KVMPTWKGSGREYRSTLGL 429
P F N + S + G V S ++ + + K S +GL
Sbjct: 191 PPTFANLNLAFVDLSRN--------MLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGL 242
Query: 430 IKS---LELSSNKLNGAVPEEIMDLVGLVALNLSRNHLTGQNSPKIGQLKSLDFLDLSRN 486
K+ L+L +N++ G +P+ + L L +LN+S N+L G+ P+ G L+ D + N
Sbjct: 243 SKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGE-IPQGGNLQRFDVSAYANN 301
Query: 487 QLVGG 491
+ + G
Sbjct: 302 KCLCG 306
Score = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 38/132 (28%), Positives = 64/132 (48%), Gaps = 6/132 (4%)
Query: 59 NFVSIDLSFNQLQGSIPDSSQHMVYL-EHLSLMFNELEGGIPKFFGNM----LNLSDNKL 113
N V I N++ G+IPDS L +++ N L G IP F N+ ++LS N L
Sbjct: 150 NLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLNLAFVDLSRNML 209
Query: 114 AIIQNMSSGCLKNSLESLHLEVNHFTGPIPDLGGFSSMKRLYLSDNLLNGTINKSIGQIF 173
++ G KN+ + +HL N + +G ++ L L +N + GT+ + + Q+
Sbjct: 210 EGDASVLFGSDKNT-QKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLK 268
Query: 174 KLEITCLSQNSL 185
L +S N+L
Sbjct: 269 FLHSLNVSFNNL 280
Score = 38.5 bits (88), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 41/161 (25%), Positives = 64/161 (39%), Gaps = 35/161 (21%)
Query: 53 LSNISSNFVSIDLSFNQLQGSIPDSSQHMVYLEHLSLMFNELEGGIPKFFGNMLNLSDNK 112
LS I + V++D S+N L G++P S + L ++ N + G IP +G+ L
Sbjct: 121 LSQIKT-LVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKL---- 175
Query: 113 LAIIQNMSSGCLKNSLESLHLEVNHFTGPIPDLGGFSSMKRLYLSDNLLNGTINKSIGQI 172
S+ + N TG IP ++ + LS N+L G + G
Sbjct: 176 ---------------FTSMTISRNRLTGKIPPTFANLNLAFVDLSRNMLEGDASVLFGSD 220
Query: 173 FKLEITCLSQNSLT---------------DLANIQIKGKLP 198
+ L++NSL DL N +I G LP
Sbjct: 221 KNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIYGTLP 261
Score = 32.7 bits (73), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 26/45 (57%)
Query: 56 ISSNFVSIDLSFNQLQGSIPDSSQHMVYLEHLSLMFNELEGGIPK 100
+S N +DL N++ G++P + +L L++ FN L G IP+
Sbjct: 242 LSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQ 286
>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 = 32.3 bits (72), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 40/152 (26%), Positives = 65/152 (42%), Gaps = 14/152 (9%)
Query: 427 LGLIKSLELSSNKLNGAVPEEIMDLVGLVALNLSRNHLTGQNSPKIGQLKSLDFLDLSRN 486
L ++ L L+ N LN P L L L+L+ N LT + + +L+ LD+SRN
Sbjct: 479 LSHLQVLYLNHNYLNSLPPGVFSHLTALRGLSLNSNRLTVLSHNDLP--ANLEILDISRN 536
Query: 487 QLVGGIXXXXXXXXXXXXMDLSYNNLSGKIPTGTQLQSFNGSVYAGNPELCGLPLPNKCR 546
QL+ +D+++N K +L +F + N + G P C
Sbjct: 537 QLLAP---NPDVFVSLSVLDITHN----KFICECELSTFINWLNHTNVTIAGPPADIYCV 589
Query: 547 DEESAPGPGM----TEGRDDADTSEDDMKISL 574
+S G + TEG D+ + + +K SL
Sbjct: 590 YPDSFSGVSLFSLSTEGCDEEEVLK-SLKFSL 620
Score = 32.0 bits (71), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 30/64 (46%)
Query: 426 TLGLIKSLELSSNKLNGAVPEEIMDLVGLVALNLSRNHLTGQNSPKIGQLKSLDFLDLSR 485
TL +K L L+ NK+N E L L LNLS N L S L + ++DL +
Sbjct: 288 TLKDLKVLNLAYNKINKIADEAFYGLDNLQVLNLSYNLLGELYSSNFYGLPKVAYIDLQK 347
Query: 486 NQLV 489
N +
Sbjct: 348 NHIA 351
>pdb|2Z80|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
pdb|2Z80|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 353
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 31/59 (52%)
Query: 430 IKSLELSSNKLNGAVPEEIMDLVGLVALNLSRNHLTGQNSPKIGQLKSLDFLDLSRNQL 488
+KSL+LS+N++ ++ V L AL L+ N + L SL+ LDLS N L
Sbjct: 54 VKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYL 112
>pdb|2Z7X|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 549
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 31/59 (52%)
Query: 430 IKSLELSSNKLNGAVPEEIMDLVGLVALNLSRNHLTGQNSPKIGQLKSLDFLDLSRNQL 488
+KSL+LS+N++ ++ V L AL L+ N + L SL+ LDLS N L
Sbjct: 28 VKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYL 86
>pdb|3V47|A Chain A, Crystal Structure Of The N-Tetminal Fragment Of Zebrafish
Tlr5 In Complex With Salmonella Flagellin
pdb|3V47|B Chain B, Crystal Structure Of The N-Tetminal Fragment Of Zebrafish
Tlr5 In Complex With Salmonella Flagellin
Length = 455
Score = 31.2 bits (69), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 30/59 (50%)
Query: 430 IKSLELSSNKLNGAVPEEIMDLVGLVALNLSRNHLTGQNSPKIGQLKSLDFLDLSRNQL 488
++ L L+ N++N L L+ LNLS+N L +S L L+ LDLS N +
Sbjct: 301 LEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQNFLGSIDSRMFENLDKLEVLDLSYNHI 359
>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 = 30.8 bits (68), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 41/173 (23%), Positives = 70/173 (40%), Gaps = 20/173 (11%)
Query: 322 LTTQTFESWEERFVRLKSNKFHGKTPFQLCQFAFLQVLDLSLNNISGKIPKCFNNFTAMT 381
++ ++ E RF + S F F LQ LDL+ ++ G +P +
Sbjct: 251 MSVESLNLQEHRFSDISSTTFQC--------FTQLQELDLTATHLKG-LPSGMKGLNLLK 301
Query: 382 QERSS----DPTIKVYYYTFVGPPYVHHYSFQDKVMPTWKGSGREYRSTLGLIKSLELSS 437
+ S D ++ F P + H + V G G + LG +++L+LS
Sbjct: 302 KLVLSVNHFDQLCQISAANF---PSLTHLYIRGNVKKLHLGVGCLEK--LGNLQTLDLSH 356
Query: 438 NKLNGA--VPEEIMDLVGLVALNLSRNHLTGQNSPKIGQLKSLDFLDLSRNQL 488
N + + ++ +L L LNLS N G S + L+ LDL+ +L
Sbjct: 357 NDIEASDCCSLQLKNLSHLQTLNLSHNEPLGLQSQAFKECPQLELLDLAFTRL 409
>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 = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 35/147 (23%), Positives = 61/147 (41%), Gaps = 17/147 (11%)
Query: 356 LQVLDLSLNNISGKIPKCF------------NNFTAMTQERSSDPTIKVYYYTFVGPPYV 403
L+ L L NNI P+ F FT + +S P I + + ++ Y+
Sbjct: 274 LRYLSLEYNNIQRLSPRSFYGLSNLRYLSLKRAFTKQSVSLASHPNIDDFSFQWLK--YL 331
Query: 404 HHYSFQDKVMPTWKGSGREYRSTLGLIKSLELSSNKLNGAVPEEIMDLVG--LVALNLSR 461
+ + D +P+ K + +L + SL + L E + L L+ LNL++
Sbjct: 332 EYLNMDDNNIPSTKSNTFTGLVSLKYL-SLSKTFTSLQTLTNETFVSLAHSPLLTLNLTK 390
Query: 462 NHLTGQNSPKIGQLKSLDFLDLSRNQL 488
NH++ + L L LDL N++
Sbjct: 391 NHISKIANGTFSWLGQLRILDLGLNEI 417
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 30.4 bits (67), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 26/102 (25%), Positives = 48/102 (47%), Gaps = 6/102 (5%)
Query: 59 NFVSIDLSFNQLQGSIPDSSQHMVYLEHLSLMFNELEGGIPKFFGNMLNLSDNKLA--II 116
N + L NQL+ P + L +LSL +NEL+ F + +L + +L +
Sbjct: 110 NLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTSLKELRLYNNQL 169
Query: 117 QNMSSGCLKN--SLESLHLEVNHFTGPIPDLGGFSSMKRLYL 156
+ + G L++L L+ N +P+ G F S+++L +
Sbjct: 170 KRVPEGAFDKLTELKTLKLDNNQLKR-VPE-GAFDSLEKLKM 209
>pdb|1W8A|A Chain A, Third Lrr Domain Of Drosophila Slit
Length = 192
Score = 30.0 bits (66), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 27/85 (31%), Positives = 45/85 (52%), Gaps = 6/85 (7%)
Query: 59 NFVSIDLSFNQLQGSIPDSSQHMVYLEHLSLMFNELEGGIPKFFGNM-----LNLSDNKL 113
+ V ++L NQL G P++ + +++ L L N+++ K F + LNL DN++
Sbjct: 55 HLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKEISNKMFLGLHQLKTLNLYDNQI 114
Query: 114 AIIQNMSSGCLKNSLESLHLEVNHF 138
+ + S L NSL SL+L N F
Sbjct: 115 SCVMPGSFEHL-NSLTSLNLASNPF 138
>pdb|4GDK|B Chain B, Crystal Structure Of Human Atg12~atg5 Conjugate In Complex
With An N- Terminal Fragment Of Atg16l1
pdb|4GDK|E Chain E, Crystal Structure Of Human Atg12~atg5 Conjugate In Complex
With An N- Terminal Fragment Of Atg16l1
pdb|4GDL|B Chain B, Crystal Structure Of Human Atg12~atg5 Conjugate In Complex
With An N- Terminal Fragment Of Atg16l1
Length = 275
Score = 29.6 bits (65), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 37/83 (44%), Gaps = 10/83 (12%)
Query: 368 GKIPKCFNNFTAMTQERSSDPTI----KVYYYTFVGPPYVHHYS---FQDKVMPTW---K 417
G+IP CF + ER ++P +V Y T V H+ Q+ + W +
Sbjct: 14 GRIPTCFTLYQDEITEREAEPYYLLLPRVSYLTLVTDKVKKHFQKVMRQEDISEIWFEYE 73
Query: 418 GSGREYRSTLGLIKSLELSSNKL 440
G+ ++ +GL+ L SS+ L
Sbjct: 74 GTPLKWHYPIGLLFDLLASSSAL 96
>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 = 29.3 bits (64), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 26/62 (41%), Positives = 36/62 (58%), Gaps = 6/62 (9%)
Query: 430 IKSLELSSNKLNGAVPEEIMD-LVGLVALNLSRNHLTGQNSPK--IGQLKSLDFLDLSRN 486
+K L L N+L ++P+ + D L L LNL+ N L Q+ PK +L +L LDLS N
Sbjct: 111 LKELVLVENQLQ-SLPDGVFDKLTNLTYLNLAHNQL--QSLPKGVFDKLTNLTELDLSYN 167
Query: 487 QL 488
QL
Sbjct: 168 QL 169
>pdb|3ZYJ|A Chain A, Netring1 In Complex With Ngl1
pdb|3ZYJ|C Chain C, Netring1 In Complex With Ngl1
Length = 440
Score = 28.9 bits (63), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 25/68 (36%), Positives = 35/68 (51%), Gaps = 5/68 (7%)
Query: 56 ISSNFVSIDLSFNQLQGSIPDSSQHMVYLEHLSLMFNELEG-GIPKFFG----NMLNLSD 110
IS+N ++L NQ+Q +S +H+ +LE L L N + I F G N L L D
Sbjct: 62 ISTNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFD 121
Query: 111 NKLAIIQN 118
N+L I N
Sbjct: 122 NRLTTIPN 129
>pdb|3RGW|L Chain L, Crystal Structure At 1.5 A Resolution Of An H2-Reduced,
O2-Tolerant Hydrogenase From Ralstonia Eutropha Unmasks
A Novel Iron-Sulfur Cluster
Length = 603
Score = 28.5 bits (62), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 24/42 (57%)
Query: 408 FQDKVMPTWKGSGREYRSTLGLIKSLELSSNKLNGAVPEEIM 449
+Q V TW GS R+Y+ +G ++ +++ +N P EI+
Sbjct: 547 YQCVVPTTWNGSPRDYKGQIGAFEASLMNTPMVNPEQPVEIL 588
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
0.318 0.136 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,189,260
Number of Sequences: 62578
Number of extensions: 571993
Number of successful extensions: 1766
Number of sequences better than 100.0: 44
Number of HSP's better than 100.0 without gapping: 28
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 1457
Number of HSP's gapped (non-prelim): 214
length of query: 574
length of database: 14,973,337
effective HSP length: 104
effective length of query: 470
effective length of database: 8,465,225
effective search space: 3978655750
effective search space used: 3978655750
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)