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= 046284
(618 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 42.4 bits (98), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 39/156 (25%), Positives = 67/156 (42%), Gaps = 8/156 (5%)
Query: 214 VNLERFPEILEKMEHLERINLNKTAITELPSSFENLPGLEELFVEDCSKLDKLPDNIGNL 273
V L +FP+ ++ HL+ ++ + ELP + + GLE L + + L LP +I +L
Sbjct: 91 VPLPQFPDQAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTLAR-NPLRALPASIASL 149
Query: 274 KCLFIISAVG-SAISQLPSSSVAYSNRLGVLYFSRCKGLAYLGHLDMRNCAVMEIPQEIA 332
L +S +++LP +A ++ G +GL L L + + +P IA
Sbjct: 150 NRLRELSIRACPELTELP-EPLASTDASG-----EHQGLVNLQSLRLEWTGIRSLPASIA 203
Query: 333 CXXXXXXXXXXXXXFESLPASIKQLSQLRSLHLEGC 368
+L +I L +L L L GC
Sbjct: 204 NLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGC 239
Score = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 37/156 (23%), Positives = 58/156 (37%), Gaps = 46/156 (29%)
Query: 72 LHWDTYPLRTLPSNFKP-KNLVALNLSCSKVEQLWEGEKNFKYLSALSFEGCKSLRSFPS 130
L W +R+LP++ +NL +L + S + L + L L GC +LR++P
Sbjct: 190 LEWTG--IRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYP- 246
Query: 131 NLHFVCPVTINFSYCVNLIEFPLISGKVTSLNLSKSAIEEVPSSIECLTDLKKLNLKYCK 190
P+ G+ LK+L LK C
Sbjct: 247 ---------------------PIFGGRAP---------------------LKRLILKDCS 264
Query: 191 RLKRISTRFCKLRSLVDLFLNGCVNLERFPEILEKM 226
L + +L L L L GCVNL R P ++ ++
Sbjct: 265 NLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQL 300
Score = 37.4 bits (85), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 26/95 (27%), Positives = 44/95 (46%), Gaps = 1/95 (1%)
Query: 158 VTSLNLSKSAIEEVPSSIECLTDLKKLNLKYCKRLKRISTRFCKLRSLVDLFLNGCVNLE 217
+ SL + S + + +I L L++L+L+ C L+ F L L L C NL
Sbjct: 208 LKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLL 267
Query: 218 RFPEILEKMEHLERINLNK-TAITELPSSFENLPG 251
P + ++ LE+++L ++ LPS LP
Sbjct: 268 TLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPA 302
>pdb|3ZYJ|A Chain A, Netring1 In Complex With Ngl1
pdb|3ZYJ|C Chain C, Netring1 In Complex With Ngl1
Length = 440
Score = 42.4 bits (98), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 62/232 (26%), Positives = 103/232 (44%), Gaps = 41/232 (17%)
Query: 9 FLDLSKIKRINLDPGAFTNMSNMRLLKFYGIEKLPSMSIEEHLSYSKVQLPNGLDYLPKK 68
L LS+ ++ GAF ++N+ L+ + + L+ +PNG K
Sbjct: 92 ILQLSRNHIRTIEIGAFNGLANLNTLELF----------DNRLT----TIPNGAFVYLSK 137
Query: 69 LRYLHWDTYPLRTLPSNFKPKNLVALNLSCSKVEQLWEGE-KNFKYLSALSFEGCKSLRS 127
L+ L P+ ++PS A N + +L GE K Y+S +FEG +LR
Sbjct: 138 LKELWLRNNPIESIPS-------YAFN-RIPSLRRLDLGELKRLSYISEGAFEGLSNLRY 189
Query: 128 FPSNLHFVCPVTINFSYCVNLIEFPLISG--KVTSLNLSKSAIEEV-PSSIECLTDLKKL 184
+N + C NL E P ++ K+ L+LS + + + P S + L L+KL
Sbjct: 190 ------------LNLAMC-NLREIPNLTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKL 236
Query: 185 NLKYCKRLKRISTRFCKLRSLVDLFLNGCVNLERFP-EILEKMEHLERINLN 235
+ + F L+SLV++ L NL P ++ + HLERI+L+
Sbjct: 237 WMIQSQIQVIERNAFDNLQSLVEINL-AHNNLTLLPHDLFTPLHHLERIHLH 287
>pdb|3ZYO|A Chain A, Crystal Structure Of The N-Terminal Leucine Rich Repeats
And Immunoglobulin Domain Of Netrin-G Ligand-3
Length = 411
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 58/211 (27%), Positives = 96/211 (45%), Gaps = 29/211 (13%)
Query: 31 MRLLKFYGIEKLPSMSIEEHLSYSKVQLPN-GLDYLPKKLRYLHWDTYPLRTLPSNFKPK 89
+R ++ LPS++ E +P +YL KLR L P+ ++PS
Sbjct: 71 VRKIEVGAFNGLPSLNTLELFDNRLTTVPTQAFEYL-SKLRELWLRNNPIESIPS----- 124
Query: 90 NLVALNLSCSKVEQLWEGE-KNFKYLSALSFEGCKSLRSFPSNLHFVCPVTINFSYCVNL 148
A N + +L GE K +Y+S +FEG +LR +N C NL
Sbjct: 125 --YAFN-RVPSLRRLDLGELKRLEYISEAAFEGLVNLRY------------LNLGMC-NL 168
Query: 149 IEFPLISG--KVTSLNLSKSAIEEV-PSSIECLTDLKKLNLKYCKRLKRISTRFCKLRSL 205
+ P ++ ++ L LS + ++ + P S + LT L+KL L + + F L+SL
Sbjct: 169 KDIPNLTALVRLEELELSGNRLDLIRPGSFQGLTSLRKLWLMHAQVATIERNAFDDLKSL 228
Query: 206 VDLFLNGCVNLERFP-EILEKMEHLERINLN 235
+L L+ NL P ++ + LER++LN
Sbjct: 229 EELNLSHN-NLMSLPHDLFTPLHRLERVHLN 258
>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 = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 39/150 (26%), Positives = 71/150 (47%), Gaps = 15/150 (10%)
Query: 96 LSCSKVEQLWEG---EKNFKYLSALSFEGC--KSLRSFPSNLHFVCPVTINFSYCVNLIE 150
L S ++ LW G + + +YL++ +FEG S+ S H ++ + C
Sbjct: 221 LQNSTLQSLWLGTFEDTDDQYLTSATFEGLCDMSVESINLQKHRFSDLSSSTFRCFT--- 277
Query: 151 FPLISGKVTSLNLSKSAIEEVPSSIECLTDLKKLNLKYCKRLKRISTRFCKLRSLVDLFL 210
+V L+L+ + + +PS IE + LKKL L + SL DL++
Sbjct: 278 ------RVQELDLTAAHLNGLPSGIEGMNSLKKLVLNANSFDQLCQINAASFPSLRDLYI 331
Query: 211 NGCV-NLERFPEILEKMEHLERINLNKTAI 239
G + L+ LEK+E+L++++L+ + I
Sbjct: 332 KGNMRKLDLGTRCLEKLENLQKLDLSHSDI 361
>pdb|3ZYN|A Chain A, Crystal Structure Of The N-Terminal Leucine Rich Repeats
Of Netrin-G Ligand-3
pdb|3ZYN|B Chain B, Crystal Structure Of The N-Terminal Leucine Rich Repeats
Of Netrin-G Ligand-3
Length = 321
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 58/211 (27%), Positives = 96/211 (45%), Gaps = 29/211 (13%)
Query: 31 MRLLKFYGIEKLPSMSIEEHLSYSKVQLP-NGLDYLPKKLRYLHWDTYPLRTLPSNFKPK 89
+R ++ LPS++ E +P +YL KLR L P+ ++PS
Sbjct: 71 VRKIEVGAFNGLPSLNTLELFDNRLTTVPTQAFEYL-SKLRELWLRNNPIESIPS----- 124
Query: 90 NLVALNLSCSKVEQLWEGE-KNFKYLSALSFEGCKSLRSFPSNLHFVCPVTINFSYCVNL 148
A N + +L GE K +Y+S +FEG +LR +N C NL
Sbjct: 125 --YAFN-RVPSLRRLDLGELKRLEYISEAAFEGLVNLR------------YLNLGMC-NL 168
Query: 149 IEFPLISG--KVTSLNLSKSAIEEV-PSSIECLTDLKKLNLKYCKRLKRISTRFCKLRSL 205
+ P ++ ++ L LS + ++ + P S + LT L+KL L + + F L+SL
Sbjct: 169 KDIPNLTALVRLEELELSGNRLDLIRPGSFQGLTSLRKLWLMHAQVATIERNAFDDLKSL 228
Query: 206 VDLFLNGCVNLERFP-EILEKMEHLERINLN 235
+L L+ NL P ++ + LER++LN
Sbjct: 229 EELNLSH-NNLMSLPHDLFTPLHRLERVHLN 258
>pdb|3CVR|A Chain A, Crystal Structure Of The Full Length Ipah3
Length = 571
Score = 38.9 bits (89), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 21/38 (55%), Positives = 27/38 (71%), Gaps = 1/38 (2%)
Query: 390 NMLRSLPELPLCLHSLNATNCNRLQSLPEIPSCLQELD 427
N L SLPELP L L+A + NRL +LPE+P+ L+ LD
Sbjct: 90 NALISLPELPASLEYLDACD-NRLSTLPELPASLKHLD 126
Score = 35.8 bits (81), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 20/41 (48%), Positives = 24/41 (58%), Gaps = 1/41 (2%)
Query: 390 NMLRSLPELPLCLHSLNATNCNRLQSLPEIPSCLQELDASV 430
N L LPELP L L+ N N+L LPE+P L+ LD S
Sbjct: 150 NQLTXLPELPTSLEVLSVRN-NQLTFLPELPESLEALDVST 189
Score = 35.4 bits (80), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 19/37 (51%), Positives = 24/37 (64%), Gaps = 1/37 (2%)
Query: 390 NMLRSLPELPLCLHSLNATNCNRLQSLPEIPSCLQEL 426
N L LPELP L +NA N N+L LPE+P+ L+ L
Sbjct: 130 NQLTXLPELPALLEYINADN-NQLTXLPELPTSLEVL 165
Score = 34.3 bits (77), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 18/39 (46%), Positives = 26/39 (66%), Gaps = 1/39 (2%)
Query: 390 NMLRSLPELPLCLHSLNATNCNRLQSLPEIPSCLQELDA 428
N L +LPELP L L+ N N+L LPE+P+ L+ ++A
Sbjct: 110 NRLSTLPELPASLKHLDVDN-NQLTXLPELPALLEYINA 147
Score = 29.3 bits (64), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 43/85 (50%), Gaps = 8/85 (9%)
Query: 209 FLNGCVN-LERFPEILEKMEHLERINLNKTAITELPSSFENLPGLEELFVEDCSKLDKLP 267
+L+ C N L PE+ ++HL +++ +T LP LP L E D ++L LP
Sbjct: 104 YLDACDNRLSTLPELPASLKHL---DVDNNQLTXLPE----LPALLEYINADNNQLTXLP 156
Query: 268 DNIGNLKCLFIISAVGSAISQLPSS 292
+ +L+ L + + + + +LP S
Sbjct: 157 ELPTSLEVLSVRNNQLTFLPELPES 181
>pdb|1G9U|A Chain A, Crystal Structure Of Yopm-leucine Rich Effector Protein
From Yersinia Pestis
pdb|1JL5|A Chain A, Novel Molecular Architecture Of Yopm-A Leucine-Rich
Effector Protein From Yersinia Pestis
Length = 454
Score = 37.7 bits (86), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 62/241 (25%), Positives = 106/241 (43%), Gaps = 51/241 (21%)
Query: 212 GCVNLERFPEILEKMEHLERINLNKTAITELPSSFENLPGLEELFVEDCSKLDKLPDNIG 271
C +L PE+ + ++ L N N A+++LP P LE L V + ++L+KLP+ +
Sbjct: 99 SCNSLTELPELPQSLKSLLVDNNNLKALSDLP------PLLEYLGVSN-NQLEKLPE-LQ 150
Query: 272 NLKCLFIISAVGSAISQLPSSS------VAYSNRLGVLYFSRCKGLAYLGHLDMRNCAVM 325
N L II +++ +LP A +N+L L + L +L + N ++
Sbjct: 151 NSSFLKIIDVDNNSLKKLPDLPPSLEFIAAGNNQLEEL--PELQNLPFLTAIYADNNSLK 208
Query: 326 EIPQEIACXXXXXXXXXXXXXFESLPAS---IKQLSQLRSLHLEGCKMXXXXXXXXXXXX 382
++P ES+ A +++L +L++L
Sbjct: 209 KLPD-------------LPLSLESIVAGNNILEELPELQNLPF----------------L 239
Query: 383 XXXXTGCNMLRSLPELPLCLHSLNATNCNRLQSLPEIPSCLQELDAS--VLEKLSKPSPD 440
N+L++LP+LP L +LN + N L LPE+P L LD S + LS+ P+
Sbjct: 240 TTIYADNNLLKTLPDLPPSLEALNVRD-NYLTDLPELPQSLTFLDVSENIFSGLSELPPN 298
Query: 441 L 441
L
Sbjct: 299 L 299
Score = 37.0 bits (84), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 78/308 (25%), Positives = 129/308 (41%), Gaps = 42/308 (13%)
Query: 162 NLSKSAIEEVPSSIECL-------TDLKKLNLKYCKRLKRISTRFCKLRSLVDL-----F 209
NL S++ E+P +E L T+L +L + LK + L++L DL +
Sbjct: 80 NLGLSSLPELPPHLESLVASCNSLTELPEL----PQSLKSLLVDNNNLKALSDLPPLLEY 135
Query: 210 LNGCVN-LERFPEILEKMEHLERINLNKTAITELPSSFENLPGLEELFVEDCSKLDKLPD 268
L N LE+ PE L+ L+ I+++ ++ +LP +LP E ++L++LP+
Sbjct: 136 LGVSNNQLEKLPE-LQNSSFLKIIDVDNNSLKKLP----DLPPSLEFIAAGNNQLEELPE 190
Query: 269 NIGNLKCLFIISAVGSAISQLPS------SSVAYSNRLGVLYFSRCKGLAYLGHLDMRNC 322
+ NL L I A +++ +LP S VA +N L L + L +L + N
Sbjct: 191 -LQNLPFLTAIYADNNSLKKLPDLPLSLESIVAGNNILEEL--PELQNLPFLTTIYADNN 247
Query: 323 AVMEIPQEIACXXXXXXXXXXXXXFESLPASIKQLSQLRSLHLEGCKMXXXXXXXXXXXX 382
+ +P LP S+ L+ +
Sbjct: 248 LLKTLPDLPPSLEALNVRDNYLTDLPELPQSLT--------FLDVSENIFSGLSELPPNL 299
Query: 383 XXXXTGCNMLRSLPELPLCLHSLNATNCNRLQSLPEIPSCLQELDASV--LEKLSKPSPD 440
N +RSL +LP L LN +N N+L LP +P L+ L AS L ++ + +
Sbjct: 300 YYLNASSNEIRSLCDLPPSLEELNVSN-NKLIELPALPPRLERLIASFNHLAEVPELPQN 358
Query: 441 LCEWHPEY 448
L + H EY
Sbjct: 359 LKQLHVEY 366
>pdb|3G06|A Chain A, The Salmonella Virulence Effector Ssph2 Functions As A
Novel E3 Ligase
Length = 622
Score = 35.8 bits (81), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 22/37 (59%), Positives = 25/37 (67%), Gaps = 1/37 (2%)
Query: 390 NMLRSLPELPLCLHSLNATNCNRLQSLPEIPSCLQEL 426
N L SLP LP L+ L A N NRL SLP +PS L+EL
Sbjct: 191 NQLASLPTLPSELYKLWAYN-NRLTSLPALPSGLKEL 226
Score = 33.9 bits (76), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 23/40 (57%), Positives = 25/40 (62%), Gaps = 1/40 (2%)
Query: 390 NMLRSLPELPLCLHSLNATNCNRLQSLPEIPSCLQELDAS 429
N L SLP LP L L A N N+L SLP +PS LQEL S
Sbjct: 151 NQLASLPALPSELCKLWAYN-NQLTSLPMLPSGLQELSVS 189
Score = 31.2 bits (69), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 21/40 (52%), Positives = 24/40 (60%), Gaps = 1/40 (2%)
Query: 390 NMLRSLPELPLCLHSLNATNCNRLQSLPEIPSCLQELDAS 429
N L SLP LP L L + NRL SLP +PS L+EL S
Sbjct: 211 NRLTSLPALPSGLKEL-IVSGNRLTSLPVLPSELKELMVS 249
>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 = 34.7 bits (78), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 72/334 (21%), Positives = 145/334 (43%), Gaps = 51/334 (15%)
Query: 3 DAIEGIFLDLSKIKRINLDPGAFTNMSNMRLLKFYGIEKLPSMSIEEHLSYSKVQL---P 59
D G F L ++ ++L+ + N+ + FYG+ L +S++ + V L P
Sbjct: 262 DVGNGSFSYLPSLRYLSLE---YNNIQRLSPRSFYGLSNLRYLSLKRAFTKQSVSLASHP 318
Query: 60 NGLDYLPKKLRYLHWDTYPLRTLPSNFKPKNLVALNLSCSKVEQLWEGEKNFKYLSALSF 119
N D+ + L+YL + LN+ + N + +F
Sbjct: 319 NIDDFSFQWLKYLEY-------------------LNMD----------DNNIPSTKSNTF 349
Query: 120 EGCKSLRSFPSNLHFVCPVTINFSYCVNLIEFPLISGKVTSLNLSKSAIEEVPS-SIECL 178
G SL+ + F T+ V+L PL+ +LNL+K+ I ++ + + L
Sbjct: 350 TGLVSLKYLSLSKTFTSLQTLTNETFVSLAHSPLL-----TLNLTKNHISKIANGTFSWL 404
Query: 179 TDLKKLNLKYCKRLKRISTRFCK-LRSLVDLFLNGCVNLERFPEILEKMEHLERINLNKT 237
L+ L+L + +++S + + LR++ +++L+ L+ + L+R+ L +
Sbjct: 405 GQLRILDLGLNEIEQKLSGQEWRGLRNIFEIYLSYNKYLQLSTSSFALVPSLQRLMLRRV 464
Query: 238 AITEL---PSSFENLPGLEELFVEDCSKLDKLPDNIGNLKCLFIISAVGSAISQLPSSSV 294
A+ + PS F L L L + + + + D + L+ L I+ + +++L
Sbjct: 465 ALKNVDISPSPFRPLRNLTILDLSNNNIANINEDLLEGLENLEILDFQHNNLARL----W 520
Query: 295 AYSNRLGVLYFSRCKGLAYLGHLDMRNCAVMEIP 328
+N G + F KGL++L L++ + + EIP
Sbjct: 521 KRANPGGPVNF--LKGLSHLHILNLESNGLDEIP 552
>pdb|4FDW|A Chain A, Crystal Structure Of A Leucine Rich Hypothetical Protein
(Bacova_01565) From Bacteroides Ovatus Atcc 8483 At 2.05
A Resolution
Length = 401
Score = 32.7 bits (73), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 37/65 (56%), Gaps = 9/65 (13%)
Query: 202 LRSLVD-LFLNGCVNLERFPEILEKME--------HLERINLNKTAITELPSSFENLPGL 252
L+S+ D F N V FP LE+++ +L++ +L+KT IT+LP+S G+
Sbjct: 146 LKSIGDXAFFNSTVQEIVFPSTLEQLKEDIFYYCYNLKKADLSKTKITKLPASTFVYAGI 205
Query: 253 EELFV 257
EE+ +
Sbjct: 206 EEVLL 210
>pdb|3G39|A Chain A, Structure Of A Lamprey Variable Lymphocyte Receptor
Length = 170
Score = 32.3 bits (72), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 24/96 (25%), Positives = 50/96 (52%), Gaps = 8/96 (8%)
Query: 190 KRLKRISTRFCKLRSLVDLFLNGCVNLERFPEILEKMEHLERINLNKTAITELPSS-FEN 248
K L + T ++ L+ N LE P + +++ L R++L+ +T LP+ F+
Sbjct: 19 KSLASVPTGIPTTTQVLYLYDNQITKLE--PGVFDRLTQLTRLDLDNNQLTVLPAGVFDK 76
Query: 249 LPGLEELFVEDCSKLDKLP----DNIGNLKCLFIIS 280
L L +L + D ++L +P DN+ +L +++++
Sbjct: 77 LTQLTQLSLND-NQLKSIPRGAFDNLKSLTHIWLLN 111
>pdb|3G3B|A Chain A, Structure Of A Lamprey Variable Lymphocyte Receptor Mutant
In Complex With A Protein Antigen
pdb|3G3B|C Chain C, Structure Of A Lamprey Variable Lymphocyte Receptor Mutant
In Complex With A Protein Antigen
pdb|3G3B|E Chain E, Structure Of A Lamprey Variable Lymphocyte Receptor Mutant
In Complex With A Protein Antigen
pdb|3G3B|G Chain G, Structure Of A Lamprey Variable Lymphocyte Receptor Mutant
In Complex With A Protein Antigen
Length = 170
Score = 32.0 bits (71), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 24/96 (25%), Positives = 50/96 (52%), Gaps = 8/96 (8%)
Query: 190 KRLKRISTRFCKLRSLVDLFLNGCVNLERFPEILEKMEHLERINLNKTAITELPSS-FEN 248
K L + T ++ L+ N LE P + +++ L R++L+ +T LP+ F+
Sbjct: 19 KSLASVPTGIPTTTQVLYLYDNRITKLE--PGVFDRLTQLTRLDLDNNQLTVLPAGVFDK 76
Query: 249 LPGLEELFVEDCSKLDKLP----DNIGNLKCLFIIS 280
L L +L + D ++L +P DN+ +L +++++
Sbjct: 77 LTQLTQLSLND-NQLKSIPRGAFDNLRSLTHIWLLN 111
>pdb|4FD0|A Chain A, Crystal Structure Of A Leucine Rich Hypothetical Protein
(Baccac_03700) From Bacteroides Caccae Atcc 43185 At
2.07 A Resolution
Length = 404
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 37/65 (56%), Gaps = 9/65 (13%)
Query: 202 LRSLVD-LFLNGCVNLERFPEILEKME--------HLERINLNKTAITELPSSFENLPGL 252
L+S+ D F N V FP LE++E +L++ +L++T +T+LP+S G+
Sbjct: 149 LQSIGDXAFFNSTVQEVVFPTTLEQLEENIFYYCRNLKKADLSRTKLTKLPASTFVYAGV 208
Query: 253 EELFV 257
EE+ +
Sbjct: 209 EEVLL 213
>pdb|3T6Q|A Chain A, Crystal Structure Of Mouse Rp105MD-1 Complex
pdb|3T6Q|B Chain B, Crystal Structure Of Mouse Rp105MD-1 Complex
Length = 606
Score = 31.6 bits (70), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 41/150 (27%), Positives = 67/150 (44%), Gaps = 15/150 (10%)
Query: 96 LSCSKVEQLWEG---EKNFKYLSALSFEG-CK-SLRSFPSNLHFVCPVTINFSYCVNLIE 150
L S ++ LW G + + + +S FEG C+ S+ S H+ ++ N +C
Sbjct: 222 LKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMSVESINLQKHYFFNISSNTFHC----- 276
Query: 151 FPLISGKVTSLNLSKSAIEEVPSSIECLTDLKKLNLKYCKRLKRISTRFCKLRSLVDLFL 210
SG + L+L+ + + E+PS + L+ LKKL L K SL L +
Sbjct: 277 ---FSG-LQELDLTATHLSELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSI 332
Query: 211 NGCVN-LERFPEILEKMEHLERINLNKTAI 239
G LE LE +E+L ++L+ I
Sbjct: 333 KGNTKRLELGTGCLENLENLRELDLSHDDI 362
>pdb|4FMZ|A Chain A, Crystal Structure Of An Internalin (Inlf) From Listeria
Monocytogenes Str. 4b F2365 At 1.91 A Resolution
pdb|4FMZ|B Chain B, Crystal Structure Of An Internalin (Inlf) From Listeria
Monocytogenes Str. 4b F2365 At 1.91 A Resolution
Length = 347
Score = 31.2 bits (69), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 39/128 (30%), Positives = 58/128 (45%), Gaps = 23/128 (17%)
Query: 201 KLRSLVDLFLNGCVNLERFPEI--LEKMEHLERINLNKTAITELPSSFENLPGLEELF-- 256
+L S+ L + G E+ I +E + +LE +NLN IT++ S NL L L+
Sbjct: 42 ELESITKLVVAG----EKVASIQGIEYLTNLEYLNLNGNQITDI-SPLSNLVKLTNLYIG 96
Query: 257 ---VEDCSKLDKLPDNIGNLKCLFIISAVGSAISQLPSSSVAYSNRLGVLY-------FS 306
+ D S L N+ NL+ L++ S IS L + + YS LG + S
Sbjct: 97 TNKITDISAL----QNLTNLRELYLNEDNISDISPLANLTKXYSLNLGANHNLSDLSPLS 152
Query: 307 RCKGLAYL 314
GL YL
Sbjct: 153 NXTGLNYL 160
>pdb|3P72|A Chain A, Structure Of Platelet Glycoprotein 1b Alpha With A Bound
Peptide Inhibitor
Length = 269
Score = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 45/96 (46%), Gaps = 2/96 (2%)
Query: 160 SLNLSKSAIEEVPSSIECLTDLKKLNLKYCKRLKRISTRFCKLRSLVDLFLNGCVNLERF 219
+L+LS + ++ +P + L L L++ + + L L +L+L G
Sbjct: 81 TLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLP 140
Query: 220 PEILEKMEHLERINLNKTAITELPSSFENLPGLEEL 255
P +L LE+++L +TELP+ N GLE L
Sbjct: 141 PGLLTPTPKLEKLSLANNQLTELPAGLLN--GLENL 174
>pdb|1U0N|D Chain D, The Ternary Von Willebrand Factor A1-Glycoprotein Ibalpha-
Botrocetin Complex
Length = 265
Score = 30.4 bits (67), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 45/96 (46%), Gaps = 2/96 (2%)
Query: 160 SLNLSKSAIEEVPSSIECLTDLKKLNLKYCKRLKRISTRFCKLRSLVDLFLNGCVNLERF 219
+L+LS + ++ +P + L L L++ + + L L +L+L G
Sbjct: 81 TLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLP 140
Query: 220 PEILEKMEHLERINLNKTAITELPSSFENLPGLEEL 255
P +L LE+++L +TELP+ N GLE L
Sbjct: 141 PGLLTPTPKLEKLSLANNQLTELPAGLLN--GLENL 174
>pdb|4ECN|A Chain A, Crystal Structure Of A Leucine-Rich Repeat Protein
(Bt_0210) From Bacteroides Thetaiotaomicron Vpi-5482 At
2.80 A Resolution
Length = 876
Score = 30.4 bits (67), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 26/55 (47%)
Query: 180 DLKKLNLKYCKRLKRISTRFCKLRSLVDLFLNGCVNLERFPEILEKMEHLERINL 234
D + N Y K+ + + L+ L D+ L C N + P+ L + L+ +N+
Sbjct: 468 DWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNXTQLPDFLYDLPELQSLNI 522
>pdb|3G3A|A Chain A, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
pdb|3G3A|C Chain C, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
pdb|3G3A|E Chain E, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
pdb|3G3A|G Chain G, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
Length = 178
Score = 30.4 bits (67), Expect = 2.7, Method: Composition-based stats.
Identities = 24/96 (25%), Positives = 50/96 (52%), Gaps = 8/96 (8%)
Query: 190 KRLKRISTRFCKLRSLVDLFLNGCVNLERFPEILEKMEHLERINLNKTAITELPSS-FEN 248
K L + T ++ L+ N LE P + +++ L R++L+ +T LP+ F+
Sbjct: 27 KSLASVPTGIPTTTQVLYLYDNQITKLE--PGVFDRLTQLTRLDLDNNQLTVLPAGVFDK 84
Query: 249 LPGLEELFVEDCSKLDKLP----DNIGNLKCLFIIS 280
L L +L + D ++L +P DN+ +L +++++
Sbjct: 85 LTQLTQLSLND-NQLKSIPRGAFDNLKSLTHIWLLN 119
>pdb|1GWB|B Chain B, Structure Of Glycoprotein 1b
pdb|1GWB|A Chain A, Structure Of Glycoprotein 1b
Length = 281
Score = 30.4 bits (67), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 45/96 (46%), Gaps = 2/96 (2%)
Query: 160 SLNLSKSAIEEVPSSIECLTDLKKLNLKYCKRLKRISTRFCKLRSLVDLFLNGCVNLERF 219
+L+LS + ++ +P + L L L++ + + L L +L+L G
Sbjct: 82 TLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLP 141
Query: 220 PEILEKMEHLERINLNKTAITELPSSFENLPGLEEL 255
P +L LE+++L +TELP+ N GLE L
Sbjct: 142 PGLLTPTPKLEKLSLANNNLTELPAGLLN--GLENL 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 = 30.4 bits (67), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 45/96 (46%), Gaps = 2/96 (2%)
Query: 160 SLNLSKSAIEEVPSSIECLTDLKKLNLKYCKRLKRISTRFCKLRSLVDLFLNGCVNLERF 219
+L+LS + ++ +P + L L L++ + + L L +L+L G
Sbjct: 81 TLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLP 140
Query: 220 PEILEKMEHLERINLNKTAITELPSSFENLPGLEEL 255
P +L LE+++L +TELP+ N GLE L
Sbjct: 141 PGLLTPTPKLEKLSLANNQLTELPAGLLN--GLENL 174
>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 = 30.4 bits (67), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 45/96 (46%), Gaps = 2/96 (2%)
Query: 160 SLNLSKSAIEEVPSSIECLTDLKKLNLKYCKRLKRISTRFCKLRSLVDLFLNGCVNLERF 219
+L+LS + ++ +P + L L L++ + + L L +L+L G
Sbjct: 81 TLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLP 140
Query: 220 PEILEKMEHLERINLNKTAITELPSSFENLPGLEEL 255
P +L LE+++L +TELP+ N GLE L
Sbjct: 141 PGLLTPTPKLEKLSLANNQLTELPAGLLN--GLENL 174
>pdb|1P8V|A Chain A, Crystal Structure Of The Complex Of Platelet Receptor
Gpib-alpha And Alpha-thrombin At 2.6a
Length = 279
Score = 30.4 bits (67), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 45/96 (46%), Gaps = 2/96 (2%)
Query: 160 SLNLSKSAIEEVPSSIECLTDLKKLNLKYCKRLKRISTRFCKLRSLVDLFLNGCVNLERF 219
+L+LS + ++ +P + L L L++ + + L L +L+L G
Sbjct: 81 TLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLP 140
Query: 220 PEILEKMEHLERINLNKTAITELPSSFENLPGLEEL 255
P +L LE+++L +TELP+ N GLE L
Sbjct: 141 PGLLTPTPKLEKLSLANNNLTELPAGLLN--GLENL 174
>pdb|2B3H|A Chain A, Crystal Structure Of Human Methionine Aminopeptidase Type
I With A Third Cobalt In The Active Site
pdb|2B3K|A Chain A, Crystal Structure Of Human Methionine Aminopeptidase Type
I In The Holo Form
pdb|2B3L|A Chain A, Crystal Structure Of Type I Human Methionine
Aminopeptidase In The Apo Form
pdb|2GZ5|A Chain A, Human Type 1 Methionine Aminopeptidase In Complex With
Ovalicin At 1.1 Ang
pdb|2NQ6|A Chain A, Crystal Structure Of Human Methionine Aminopeptidase Type
1 In Complex With
3-Tert-Butoxycarbonylaminopyridine-2-Carboxylic Acid
Thiazole-2- Ylamide
pdb|2NQ7|A Chain A, Crystal Structure Of Type 1 Human Methionine
Aminopeptidase In Complex With
3-(2,2-Dimethylpropionylamino)pyridine-2-Carboxylic Acid
Thiazole-2-Ylamide
Length = 329
Score = 30.4 bits (67), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 29/71 (40%), Gaps = 5/71 (7%)
Query: 58 LPNGLDYLPKKLRYL-----HWDTYPLRTLPSNFKPKNLVALNLSCSKVEQLWEGEKNFK 112
+P G L RY H+ P R +PS + + L S+ EQ +G K
Sbjct: 15 VPRGSHMLEDPYRYTGKLRPHYPLMPTRPVPSYIQRPDYADHPLGMSESEQALKGTSQIK 74
Query: 113 YLSALSFEGCK 123
LS+ EG +
Sbjct: 75 LLSSEDIEGMR 85
>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 = 30.0 bits (66), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 45/96 (46%), Gaps = 2/96 (2%)
Query: 160 SLNLSKSAIEEVPSSIECLTDLKKLNLKYCKRLKRISTRFCKLRSLVDLFLNGCVNLERF 219
+L+LS + ++ +P + L L L++ + + L L +L+L G
Sbjct: 81 TLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLP 140
Query: 220 PEILEKMEHLERINLNKTAITELPSSFENLPGLEEL 255
P +L LE+++L +TELP+ N GLE L
Sbjct: 141 PGLLTPTPKLEKLSLANNDLTELPAGLLN--GLENL 174
>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 = 30.0 bits (66), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 45/96 (46%), Gaps = 2/96 (2%)
Query: 160 SLNLSKSAIEEVPSSIECLTDLKKLNLKYCKRLKRISTRFCKLRSLVDLFLNGCVNLERF 219
+L+LS + ++ +P + L L L++ + + L L +L+L G
Sbjct: 81 TLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLP 140
Query: 220 PEILEKMEHLERINLNKTAITELPSSFENLPGLEEL 255
P +L LE+++L +TELP+ N GLE L
Sbjct: 141 PGLLTPTPKLEKLSLANNNLTELPAGLLN--GLENL 174
>pdb|1OOK|G Chain G, Crystal Structure Of The Complex Of Platelet Receptor
Gpib-alpha And Human Alpha-thrombin
Length = 290
Score = 30.0 bits (66), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 45/96 (46%), Gaps = 2/96 (2%)
Query: 160 SLNLSKSAIEEVPSSIECLTDLKKLNLKYCKRLKRISTRFCKLRSLVDLFLNGCVNLERF 219
+L+LS + ++ +P + L L L++ + + L L +L+L G
Sbjct: 81 TLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLP 140
Query: 220 PEILEKMEHLERINLNKTAITELPSSFENLPGLEEL 255
P +L LE+++L +TELP+ N GLE L
Sbjct: 141 PGLLTPTPKLEKLSLANNNLTELPAGLLN--GLENL 174
>pdb|3PMH|G Chain G, Mechanism Of Sulfotyrosine-Mediated Glycoprotein Ib
Interaction With Two Distinct Alpha-Thrombin Sites
Length = 290
Score = 30.0 bits (66), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 45/96 (46%), Gaps = 2/96 (2%)
Query: 160 SLNLSKSAIEEVPSSIECLTDLKKLNLKYCKRLKRISTRFCKLRSLVDLFLNGCVNLERF 219
+L+LS + ++ +P + L L L++ + + L L +L+L G
Sbjct: 81 TLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLP 140
Query: 220 PEILEKMEHLERINLNKTAITELPSSFENLPGLEEL 255
P +L LE+++L +TELP+ N GLE L
Sbjct: 141 PGLLTPTPKLEKLSLANNNLTELPAGLLN--GLENL 174
>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 = 29.6 bits (65), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 32/125 (25%), Positives = 54/125 (43%), Gaps = 10/125 (8%)
Query: 158 VTSLNLSKSAIEEVPSSIECLTDLKKLNLKYCKRLKR----ISTRFCKLRSLVDLFLNGC 213
++ LNL K +PSS L +L LN Y + I KL L L++
Sbjct: 57 LSGLNLPKP--YPIPSS---LANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHT 111
Query: 214 VNLERFPEILEKMEHLERINLNKTAIT-ELPSSFENLPGLEELFVEDCSKLDKLPDNIGN 272
P+ L +++ L ++ + A++ LP S +LP L + + +PD+ G+
Sbjct: 112 NVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGS 171
Query: 273 LKCLF 277
LF
Sbjct: 172 FSKLF 176
>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 = 29.6 bits (65), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 13/50 (26%), Positives = 26/50 (52%)
Query: 185 NLKYCKRLKRISTRFCKLRSLVDLFLNGCVNLERFPEILEKMEHLERINL 234
N +Y ++ K ++ L+ L D+ + C NL + P L+ + + IN+
Sbjct: 231 NSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEXQLINV 280
>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 = 28.9 bits (63), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 34/66 (51%), Gaps = 1/66 (1%)
Query: 225 KMEHLERINLNKTAITELPSSFENLPGLEELFVEDCSKLDKLPDNIGNLKCLFIISAVGS 284
K + L R+ LN ++TELP+ +NL L L + ++L LP +G+ L +
Sbjct: 245 KYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSH-NRLTSLPAELGSCFQLKYFYFFDN 303
Query: 285 AISQLP 290
++ LP
Sbjct: 304 MVTTLP 309
>pdb|2QGY|A Chain A, Crystal Structure Of An Enolase From The Environmental
Genome Shotgun Sequencing Of The Sargasso Sea
pdb|2QGY|B Chain B, Crystal Structure Of An Enolase From The Environmental
Genome Shotgun Sequencing Of The Sargasso Sea
Length = 391
Score = 28.9 bits (63), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 33/61 (54%), Gaps = 6/61 (9%)
Query: 140 INFSYCVNLIEFPL--ISGKVTSLNL----SKSAIEEVPSSIECLTDLKKLNLKYCKRLK 193
++FS + IE L ISGK+ +L L +KS VP C +DLKK Y ++++
Sbjct: 99 LDFSSATSAIEIALWDISGKLKNLPLNSLLTKSPKPNVPIYATCWSDLKKDTNDYLRQIE 158
Query: 194 R 194
+
Sbjct: 159 K 159
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.321 0.138 0.415
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,147,827
Number of Sequences: 62578
Number of extensions: 677014
Number of successful extensions: 1644
Number of sequences better than 100.0: 38
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 33
Number of HSP's that attempted gapping in prelim test: 1568
Number of HSP's gapped (non-prelim): 89
length of query: 618
length of database: 14,973,337
effective HSP length: 105
effective length of query: 513
effective length of database: 8,402,647
effective search space: 4310557911
effective search space used: 4310557911
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: 54 (25.4 bits)