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= psy5792
(377 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4A0P|A Chain A, Crystal Structure Of Lrp6p3e3p4e4
Length = 628
Score = 132 bits (333), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 71/204 (34%), Positives = 117/204 (57%), Gaps = 14/204 (6%)
Query: 151 FILFSVNSGYDIMGIKYNKNESKVTQVLGPLSKVSLAAKVDFHAAEDYIYWVDIDHGTIS 210
F+LFS + + ++ N N + PL+ V A+ +DF ++ IYW DI TIS
Sbjct: 8 FLLFSRRADIRRISLETNNNNVAI-----PLTGVKEASALDFDVTDNRIYWTDISLKTIS 62
Query: 211 RTHRDGTGRENIIEYVETGDPTPVDQFTDIAVDWIAQNIYWSDPKENVIEVARLTGQYRY 270
R +G+ E+++E+ +D +AVDW+ +N+YW+D N IEV++L GQ+R
Sbjct: 63 RAFMNGSALEHVVEF-------GLDYPEGMAVDWLGKNLYWADTGTNRIEVSKLDGQHRQ 115
Query: 271 VLISGGVDQPSALAVDPESGYLFWSESGKIPLIARAGLDGKKQTILAQEIIMPIKDITLD 330
VL+ +D P ALA+DP G+++W+E G P I RA +DG ++T L + +T+D
Sbjct: 116 VLVWKDLDSPRALALDPAEGFMYWTEWGGKPKIDRAAMDGSERTTLVPNVGRA-NGLTID 174
Query: 331 RKNKRVYWCYSVGSNVLESMDYSG 354
+R+YW + +N++ES + G
Sbjct: 175 YAKRRLYWT-DLDTNLIESSNMLG 197
Score = 87.8 bits (216), Expect = 9e-18, Method: Compositional matrix adjust.
Identities = 64/239 (26%), Positives = 117/239 (48%), Gaps = 8/239 (3%)
Query: 129 VLGPLSKVSLAAKVDFHAGISDFILFSVNSGYDIMGIKYNKNESKVTQVLGPLSKVSLAA 188
V G + SL A + + F+LFS S + M I +E + ++ P+ +
Sbjct: 288 VCGCPAHYSLNADNRTCSAPTTFLLFSQKSAINRMVI----DEQQSPDIILPIHSLRNVR 343
Query: 189 KVDFHAAEDYIYWVDIDHGTISRTHRDGTGRENIIEYVETGDPTPVDQFTDIAVDWIAQN 248
+D+ + +YW+D I + DG+ ++ + + D+++D ++
Sbjct: 344 AIDYDPLDKQLYWIDSRQNMIRKAQEDGSQGFTVVVSSVPSQNLEIQPY-DLSIDIYSRY 402
Query: 249 IYWSDPKENVIEVARLTGQYRYVLISGGVDQPSALAVDPESGYLFWSE-SGKIPLIARAG 307
IYW+ NVI V RL G+ V++ G D+P A+ V+PE GY++++ + P I RA
Sbjct: 403 IYWTCEATNVINVTRLDGRSVGVVLKGEQDRPRAVVVNPEKGYMYFTNLQERSPKIERAA 462
Query: 308 LDGKKQTILAQEIIMPIKDITLDRKNKRVYWCYSVGSNVLESMDYSGGSKMQLKLSSNI 366
LDG ++ +L + + LD + +++W S +ES D SG +++ L+ SNI
Sbjct: 463 LDGTEREVLFFSGLSKPIALALDSRLGKLFWADS-DLRRIESSDLSGANRIVLE-DSNI 519
Score = 41.6 bits (96), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 33/152 (21%), Positives = 66/152 (43%), Gaps = 13/152 (8%)
Query: 195 AEDYIYWVDID-HGTISRTHRDGTGRENIIEYVETGDPTPVDQFTDIAVDWIAQNIYWSD 253
AE ++YW + I R DG+ R ++ V + + +D+ + +YW+D
Sbjct: 133 AEGFMYWTEWGGKPKIDRAAMDGSERTTLVPNVGRAN--------GLTIDYAKRRLYWTD 184
Query: 254 PKENVIEVARLTGQYRYVLISGGVDQPSALAVDPESGYLFWSESGKIPLIARAGLDGKKQ 313
N+IE + + G R V+ D P + Y++W++ + + G+ +
Sbjct: 185 LDTNLIESSNMLGLNREVIAD---DLPHPFGLTQYQDYIYWTDWSRRSIERANKTSGQNR 241
Query: 314 TILAQEIIMPIKDITLDRKNKRVYWCYSVGSN 345
TI+ Q + + DI + +++ W SN
Sbjct: 242 TII-QGHLDYVMDILVFHSSRQSGWNECASSN 272
Score = 37.0 bits (84), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 34/132 (25%), Positives = 60/132 (45%), Gaps = 12/132 (9%)
Query: 198 YIYWVDIDHGT--ISRTHRDGTGRENIIEYVETGDPTPVDQFTDIAVDWIAQNIYWSDPK 255
Y+Y+ ++ + I R DGT RE + +G P+ +A+D ++W+D
Sbjct: 445 YMYFTNLQERSPKIERAALDGTEREVLFF---SGLSKPIA----LALDSRLGKLFWADSD 497
Query: 256 ENVIEVARLTGQYRYVLISGGVDQPSALAVDPESGYLFWSESGKIPLIARAGLDGKKQTI 315
IE + L+G R VL + QP L V +L+W + + +I + + G++
Sbjct: 498 LRRIESSDLSGANRIVLEDSNILQPVGLTV--FENWLYWIDKQQ-QMIEKIDMTGREGRT 554
Query: 316 LAQEIIMPIKDI 327
Q I + DI
Sbjct: 555 KVQARIAQLSDI 566
>pdb|3S8V|A Chain A, Crystal Structure Of Lrp6-Dkk1 Complex
pdb|3S8V|B Chain B, Crystal Structure Of Lrp6-Dkk1 Complex
pdb|3S8Z|A Chain A, Crystal Structure Of Lrp6-E3e4
Length = 623
Score = 132 bits (333), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 71/204 (34%), Positives = 117/204 (57%), Gaps = 14/204 (6%)
Query: 151 FILFSVNSGYDIMGIKYNKNESKVTQVLGPLSKVSLAAKVDFHAAEDYIYWVDIDHGTIS 210
F+LFS + + ++ N N + PL+ V A+ +DF ++ IYW DI TIS
Sbjct: 13 FLLFSRRADIRRISLETNNNNVAI-----PLTGVKEASALDFDVTDNRIYWTDISLKTIS 67
Query: 211 RTHRDGTGRENIIEYVETGDPTPVDQFTDIAVDWIAQNIYWSDPKENVIEVARLTGQYRY 270
R +G+ E+++E+ +D +AVDW+ +N+YW+D N IEV++L GQ+R
Sbjct: 68 RAFMNGSALEHVVEF-------GLDYPEGMAVDWLGKNLYWADTGTNRIEVSKLDGQHRQ 120
Query: 271 VLISGGVDQPSALAVDPESGYLFWSESGKIPLIARAGLDGKKQTILAQEIIMPIKDITLD 330
VL+ +D P ALA+DP G+++W+E G P I RA +DG ++T L + +T+D
Sbjct: 121 VLVWKDLDSPRALALDPAEGFMYWTEWGGKPKIDRAAMDGSERTTLVPNVGRA-NGLTID 179
Query: 331 RKNKRVYWCYSVGSNVLESMDYSG 354
+R+YW + +N++ES + G
Sbjct: 180 YAKRRLYWT-DLDTNLIESSNMLG 202
Score = 88.6 bits (218), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 64/239 (26%), Positives = 117/239 (48%), Gaps = 8/239 (3%)
Query: 129 VLGPLSKVSLAAKVDFHAGISDFILFSVNSGYDIMGIKYNKNESKVTQVLGPLSKVSLAA 188
V G + SL A + + F+LFS S + M I +E + ++ P+ +
Sbjct: 293 VCGCPAHYSLNADNRTCSAPTTFLLFSQKSAINRMVI----DEQQSPDIILPIHSLRNVR 348
Query: 189 KVDFHAAEDYIYWVDIDHGTISRTHRDGTGRENIIEYVETGDPTPVDQFTDIAVDWIAQN 248
+D+ + +YW+D I + DG+ ++ + + D+++D ++
Sbjct: 349 AIDYDPLDKQLYWIDSRQNMIRKAQEDGSQGFTVVVSSVPSQNLEIQPY-DLSIDIYSRY 407
Query: 249 IYWSDPKENVIEVARLTGQYRYVLISGGVDQPSALAVDPESGYLFWSE-SGKIPLIARAG 307
IYW+ NVI V RL G+ V++ G D+P A+ V+PE GY++++ + P I RA
Sbjct: 408 IYWTCEATNVINVTRLDGRSVGVVLKGEQDRPRAIVVNPEKGYMYFTNLQERSPKIERAA 467
Query: 308 LDGKKQTILAQEIIMPIKDITLDRKNKRVYWCYSVGSNVLESMDYSGGSKMQLKLSSNI 366
LDG ++ +L + + LD + +++W S +ES D SG +++ L+ SNI
Sbjct: 468 LDGTEREVLFFSGLSKPIALALDSRLGKLFWADS-DLRRIESSDLSGANRIVLE-DSNI 524
Score = 41.6 bits (96), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 33/152 (21%), Positives = 66/152 (43%), Gaps = 13/152 (8%)
Query: 195 AEDYIYWVDID-HGTISRTHRDGTGRENIIEYVETGDPTPVDQFTDIAVDWIAQNIYWSD 253
AE ++YW + I R DG+ R ++ V + + +D+ + +YW+D
Sbjct: 138 AEGFMYWTEWGGKPKIDRAAMDGSERTTLVPNVGRAN--------GLTIDYAKRRLYWTD 189
Query: 254 PKENVIEVARLTGQYRYVLISGGVDQPSALAVDPESGYLFWSESGKIPLIARAGLDGKKQ 313
N+IE + + G R V+ D P + Y++W++ + + G+ +
Sbjct: 190 LDTNLIESSNMLGLNREVIAD---DLPHPFGLTQYQDYIYWTDWSRRSIERANKTSGQNR 246
Query: 314 TILAQEIIMPIKDITLDRKNKRVYWCYSVGSN 345
TI+ Q + + DI + +++ W SN
Sbjct: 247 TII-QGHLDYVMDILVFHSSRQSGWNECASSN 277
Score = 37.4 bits (85), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 34/132 (25%), Positives = 60/132 (45%), Gaps = 12/132 (9%)
Query: 198 YIYWVDIDHGT--ISRTHRDGTGRENIIEYVETGDPTPVDQFTDIAVDWIAQNIYWSDPK 255
Y+Y+ ++ + I R DGT RE + +G P+ +A+D ++W+D
Sbjct: 450 YMYFTNLQERSPKIERAALDGTEREVLFF---SGLSKPIA----LALDSRLGKLFWADSD 502
Query: 256 ENVIEVARLTGQYRYVLISGGVDQPSALAVDPESGYLFWSESGKIPLIARAGLDGKKQTI 315
IE + L+G R VL + QP L V +L+W + + +I + + G++
Sbjct: 503 LRRIESSDLSGANRIVLEDSNILQPVGLTV--FENWLYWIDKQQ-QMIEKIDMTGREGRT 559
Query: 316 LAQEIIMPIKDI 327
Q I + DI
Sbjct: 560 KVQARIAQLSDI 571
>pdb|3S2K|A Chain A, Structural Basis Of Wnt Signaling Inhibition By Dickkopf
Binding To Lrp56.
pdb|3S2K|B Chain B, Structural Basis Of Wnt Signaling Inhibition By Dickkopf
Binding To Lrp56
Length = 629
Score = 132 bits (333), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 71/204 (34%), Positives = 117/204 (57%), Gaps = 14/204 (6%)
Query: 151 FILFSVNSGYDIMGIKYNKNESKVTQVLGPLSKVSLAAKVDFHAAEDYIYWVDIDHGTIS 210
F+LFS + + ++ N N + PL+ V A+ +DF ++ IYW DI TIS
Sbjct: 6 FLLFSRRADIRRISLETNNNNVAI-----PLTGVKEASALDFDVTDNRIYWTDISLKTIS 60
Query: 211 RTHRDGTGRENIIEYVETGDPTPVDQFTDIAVDWIAQNIYWSDPKENVIEVARLTGQYRY 270
R +G+ E+++E+ +D +AVDW+ +N+YW+D N IEV++L GQ+R
Sbjct: 61 RAFMNGSALEHVVEF-------GLDYPEGMAVDWLGKNLYWADTGTNRIEVSKLDGQHRQ 113
Query: 271 VLISGGVDQPSALAVDPESGYLFWSESGKIPLIARAGLDGKKQTILAQEIIMPIKDITLD 330
VL+ +D P ALA+DP G+++W+E G P I RA +DG ++T L + +T+D
Sbjct: 114 VLVWKDLDSPRALALDPAEGFMYWTEWGGKPKIDRAAMDGSERTTLVPNVGRA-NGLTID 172
Query: 331 RKNKRVYWCYSVGSNVLESMDYSG 354
+R+YW + +N++ES + G
Sbjct: 173 YAKRRLYWT-DLDTNLIESSNMLG 195
Score = 88.2 bits (217), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 64/239 (26%), Positives = 117/239 (48%), Gaps = 8/239 (3%)
Query: 129 VLGPLSKVSLAAKVDFHAGISDFILFSVNSGYDIMGIKYNKNESKVTQVLGPLSKVSLAA 188
V G + SL A + + F+LFS S + M I +E + ++ P+ +
Sbjct: 286 VCGCPAHYSLNADNRTCSAPTTFLLFSQKSAINRMVI----DEQQSPDIILPIHSLRNVR 341
Query: 189 KVDFHAAEDYIYWVDIDHGTISRTHRDGTGRENIIEYVETGDPTPVDQFTDIAVDWIAQN 248
+D+ + +YW+D I + DG+ ++ + + D+++D ++
Sbjct: 342 AIDYDPLDKQLYWIDSRQNMIRKAQEDGSQGFTVVVSSVPSQNLEIQPY-DLSIDIYSRY 400
Query: 249 IYWSDPKENVIEVARLTGQYRYVLISGGVDQPSALAVDPESGYLFWSE-SGKIPLIARAG 307
IYW+ NVI V RL G+ V++ G D+P A+ V+PE GY++++ + P I RA
Sbjct: 401 IYWTCEATNVINVTRLDGRSVGVVLKGEQDRPRAIVVNPEKGYMYFTNLQERSPKIERAA 460
Query: 308 LDGKKQTILAQEIIMPIKDITLDRKNKRVYWCYSVGSNVLESMDYSGGSKMQLKLSSNI 366
LDG ++ +L + + LD + +++W S +ES D SG +++ L+ SNI
Sbjct: 461 LDGTEREVLFFSGLSKPIALALDSRLGKLFWADS-DLRRIESSDLSGANRIVLE-DSNI 517
Score = 41.6 bits (96), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 33/152 (21%), Positives = 66/152 (43%), Gaps = 13/152 (8%)
Query: 195 AEDYIYWVDID-HGTISRTHRDGTGRENIIEYVETGDPTPVDQFTDIAVDWIAQNIYWSD 253
AE ++YW + I R DG+ R ++ V + + +D+ + +YW+D
Sbjct: 131 AEGFMYWTEWGGKPKIDRAAMDGSERTTLVPNVGRAN--------GLTIDYAKRRLYWTD 182
Query: 254 PKENVIEVARLTGQYRYVLISGGVDQPSALAVDPESGYLFWSESGKIPLIARAGLDGKKQ 313
N+IE + + G R V+ D P + Y++W++ + + G+ +
Sbjct: 183 LDTNLIESSNMLGLNREVIAD---DLPHPFGLTQYQDYIYWTDWSRRSIERANKTSGQNR 239
Query: 314 TILAQEIIMPIKDITLDRKNKRVYWCYSVGSN 345
TI+ Q + + DI + +++ W SN
Sbjct: 240 TII-QGHLDYVMDILVFHSSRQSGWNECASSN 270
Score = 37.0 bits (84), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 34/132 (25%), Positives = 60/132 (45%), Gaps = 12/132 (9%)
Query: 198 YIYWVDIDHGT--ISRTHRDGTGRENIIEYVETGDPTPVDQFTDIAVDWIAQNIYWSDPK 255
Y+Y+ ++ + I R DGT RE + +G P+ +A+D ++W+D
Sbjct: 443 YMYFTNLQERSPKIERAALDGTEREVLFF---SGLSKPIA----LALDSRLGKLFWADSD 495
Query: 256 ENVIEVARLTGQYRYVLISGGVDQPSALAVDPESGYLFWSESGKIPLIARAGLDGKKQTI 315
IE + L+G R VL + QP L V +L+W + + +I + + G++
Sbjct: 496 LRRIESSDLSGANRIVLEDSNILQPVGLTV--FENWLYWIDKQQ-QMIEKIDMTGREGRT 552
Query: 316 LAQEIIMPIKDI 327
Q I + DI
Sbjct: 553 KVQARIAQLSDI 564
>pdb|3SOQ|A Chain A, The Structure Of The First Ywtd Beta Propeller Domain Of
Lrp6 In Complex With A Dkk1 Peptide
pdb|3SOV|A Chain A, The Structure Of A Beta Propeller Domain In Complex With
Peptide S
Length = 318
Score = 113 bits (283), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 65/193 (33%), Positives = 106/193 (54%), Gaps = 11/193 (5%)
Query: 146 AGISDFILFSVNSGYDIMGIKYNKNESKVTQVLGPLSKVSLAAKVDFHAAEDYIYWVDID 205
AG + +L++ + D+ + + T V+G L AA VDF + IYW D+
Sbjct: 1 AGSAPLLLYA--NRRDLRLVDATNGKENATIVVGGLED---AAAVDFVFSHGLIYWSDVS 55
Query: 206 HGTISRTHRDGTGRENIIEYVETGDPTPVDQFTDIAVDWIAQNIYWSDPKENVIEVARLT 265
I RT + T E++ V +G +P +A DW+ + +YW+D + N IEV+ L
Sbjct: 56 EEAIKRTEFNKT--ESVQNVVVSGLLSP----DGLACDWLGEKLYWTDSETNRIEVSNLD 109
Query: 266 GQYRYVLISGGVDQPSALAVDPESGYLFWSESGKIPLIARAGLDGKKQTILAQEIIMPIK 325
G R VL +DQP A+A+DP SG+++W++ G++P I RAG+DG + I+ I
Sbjct: 110 GSLRKVLFWQELDQPRAIALDPSSGFMYWTDWGEVPKIERAGMDGSSRFIIINSEIYWPN 169
Query: 326 DITLDRKNKRVYW 338
+TLD + +++YW
Sbjct: 170 GLTLDYEEQKLYW 182
>pdb|3S94|A Chain A, Crystal Structure Of Lrp6-E1e2
pdb|3S94|B Chain B, Crystal Structure Of Lrp6-E1e2
Length = 619
Score = 112 bits (281), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 61/186 (32%), Positives = 100/186 (53%), Gaps = 8/186 (4%)
Query: 175 TQVLGPLSKVSLAAKVDFHAAEDYIYWVDIDHGTISRTHRDGTGRENIIEYVETGDPTPV 234
T ++ L + A +D+ E YIYW D + I R+ DG+G + ++ + P
Sbjct: 339 TDIVLQLEDIRHAIAIDYDPVEGYIYWTDDEVRAIRRSFIDGSGSQFVVT-AQIAHPD-- 395
Query: 235 DQFTDIAVDWIAQNIYWSDPKENVIEVARLTGQYRYVLISGGVDQPSALAVDPESGYLFW 294
IAVDW+A+N+YW+D + IEV RL G R +LIS +++P A+ +DP GY++W
Sbjct: 396 ----GIAVDWVARNLYWTDTGTDRIEVTRLNGTMRKILISEDLEEPRAIVLDPMVGYMYW 451
Query: 295 SESGKIPLIARAGLDGKKQTILAQEIIMPIKDITLDRKNKRVYWCYSVGSNVLESMDYSG 354
++ G+IP I RA LDG + +L + + LD ++YW ++ +E M+ G
Sbjct: 452 TDWGEIPKIERAALDGSDRVVLVNTSLGWPNGLALDYDEGKIYW-GDAKTDKIEVMNTDG 510
Query: 355 GSKMQL 360
+ L
Sbjct: 511 TGRRVL 516
Score = 111 bits (277), Expect = 7e-25, Method: Compositional matrix adjust.
Identities = 62/178 (34%), Positives = 98/178 (55%), Gaps = 9/178 (5%)
Query: 161 DIMGIKYNKNESKVTQVLGPLSKVSLAAKVDFHAAEDYIYWVDIDHGTISRTHRDGTGRE 220
D+ + + T V+G L AA VDF + IYW D+ I RT + T E
Sbjct: 19 DLRLVDATNGKENATIVVGGLED---AAAVDFVFSHGLIYWSDVSEEAIKRTEFNKT--E 73
Query: 221 NIIEYVETGDPTPVDQFTDIAVDWIAQNIYWSDPKENVIEVARLTGQYRYVLISGGVDQP 280
++ V +G +P +A DW+ + +YW+D + N IEV+ L G R VL +DQP
Sbjct: 74 SVQNVVVSGLLSP----DGLACDWLGEKLYWTDSETNRIEVSNLDGSLRKVLFWQELDQP 129
Query: 281 SALAVDPESGYLFWSESGKIPLIARAGLDGKKQTILAQEIIMPIKDITLDRKNKRVYW 338
A+A+DP SG+++W++ G++P I RAG+DG + I+ I +TLD + +++YW
Sbjct: 130 RAIALDPSSGFMYWTDWGEVPKIERAGMDGSSRFIIINSEIYWPNGLTLDYEEQKLYW 187
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 17/33 (51%)
Query: 192 FHAAEDYIYWVDIDHGTISRTHRDGTGRENIIE 224
F DY+YW D +I R H+ RE II+
Sbjct: 527 FTLLGDYVYWTDWQRRSIERVHKRSAEREVIID 559
Score = 27.7 bits (60), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 33/79 (41%), Gaps = 11/79 (13%)
Query: 196 EDYIYWVDIDHGTISRTHRDGTGRENIIEYVETGDPTP-VDQFTDIAVDWIAQNIYWSDP 254
E IYW D I + DGTGR ++E D P + FT + +YW+D
Sbjct: 490 EGKIYWGDAKTDKIEVMNTDGTGRRVLVE-----DKIPHIFGFT-----LLGDYVYWTDW 539
Query: 255 KENVIEVARLTGQYRYVLI 273
+ IE R V+I
Sbjct: 540 QRRSIERVHKRSAEREVII 558
>pdb|3SOB|B Chain B, The Structure Of The First Ywtd Beta Propeller Domain Of
Lrp6 In Complex With A Fab
Length = 316
Score = 112 bits (281), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 62/178 (34%), Positives = 98/178 (55%), Gaps = 9/178 (5%)
Query: 161 DIMGIKYNKNESKVTQVLGPLSKVSLAAKVDFHAAEDYIYWVDIDHGTISRTHRDGTGRE 220
D+ + + T V+G L AA VDF + IYW D+ I RT + T E
Sbjct: 11 DLRLVDATNGKENATIVVGGLED---AAAVDFVFSHGLIYWSDVSEEAIKRTEFNKT--E 65
Query: 221 NIIEYVETGDPTPVDQFTDIAVDWIAQNIYWSDPKENVIEVARLTGQYRYVLISGGVDQP 280
++ V +G +P +A DW+ + +YW+D + N IEV+ L G R VL +DQP
Sbjct: 66 SVQNVVVSGLLSP----DGLACDWLGEKLYWTDSETNRIEVSNLDGSLRKVLFWQELDQP 121
Query: 281 SALAVDPESGYLFWSESGKIPLIARAGLDGKKQTILAQEIIMPIKDITLDRKNKRVYW 338
A+A+DP SG+++W++ G++P I RAG+DG + I+ I +TLD + +++YW
Sbjct: 122 RAIALDPSSGFMYWTDWGEVPKIERAGMDGSSRFIIINSEIYWPNGLTLDYEEQKLYW 179
>pdb|4DG6|A Chain A, Crystal Structure Of Domains 1 And 2 Of Lrp6
Length = 616
Score = 112 bits (281), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 61/186 (32%), Positives = 100/186 (53%), Gaps = 8/186 (4%)
Query: 175 TQVLGPLSKVSLAAKVDFHAAEDYIYWVDIDHGTISRTHRDGTGRENIIEYVETGDPTPV 234
T ++ L + A +D+ E YIYW D + I R+ DG+G + ++ + P
Sbjct: 331 TDIVLQLEDIRHAIAIDYDPVEGYIYWTDDEVRAIRRSFIDGSGSQFVVT-AQIAHPD-- 387
Query: 235 DQFTDIAVDWIAQNIYWSDPKENVIEVARLTGQYRYVLISGGVDQPSALAVDPESGYLFW 294
IAVDW+A+N+YW+D + IEV RL G R +LIS +++P A+ +DP GY++W
Sbjct: 388 ----GIAVDWVARNLYWTDTGTDRIEVTRLNGTMRKILISEDLEEPRAIVLDPMVGYMYW 443
Query: 295 SESGKIPLIARAGLDGKKQTILAQEIIMPIKDITLDRKNKRVYWCYSVGSNVLESMDYSG 354
++ G+IP I RA LDG + +L + + LD ++YW ++ +E M+ G
Sbjct: 444 TDWGEIPKIERAALDGSDRVVLVNTSLGWPNGLALDYDEGKIYW-GDAKTDKIEVMNTDG 502
Query: 355 GSKMQL 360
+ L
Sbjct: 503 TGRRVL 508
Score = 111 bits (277), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 62/178 (34%), Positives = 98/178 (55%), Gaps = 9/178 (5%)
Query: 161 DIMGIKYNKNESKVTQVLGPLSKVSLAAKVDFHAAEDYIYWVDIDHGTISRTHRDGTGRE 220
D+ + + T V+G L AA VDF + IYW D+ I RT + T E
Sbjct: 11 DLRLVDATNGKENATIVVGGLED---AAAVDFVFSHGLIYWSDVSEEAIKRTEFNKT--E 65
Query: 221 NIIEYVETGDPTPVDQFTDIAVDWIAQNIYWSDPKENVIEVARLTGQYRYVLISGGVDQP 280
++ V +G +P +A DW+ + +YW+D + N IEV+ L G R VL +DQP
Sbjct: 66 SVQNVVVSGLLSP----DGLACDWLGEKLYWTDSETNRIEVSNLDGSLRKVLFWQELDQP 121
Query: 281 SALAVDPESGYLFWSESGKIPLIARAGLDGKKQTILAQEIIMPIKDITLDRKNKRVYW 338
A+A+DP SG+++W++ G++P I RAG+DG + I+ I +TLD + +++YW
Sbjct: 122 RAIALDPSSGFMYWTDWGEVPKIERAGMDGSSRFIIINSEIYWPNGLTLDYEEQKLYW 179
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 17/33 (51%)
Query: 192 FHAAEDYIYWVDIDHGTISRTHRDGTGRENIIE 224
F DY+YW D +I R H+ RE II+
Sbjct: 519 FTLLGDYVYWTDWQRRSIERVHKRSAEREVIID 551
Score = 27.7 bits (60), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 33/79 (41%), Gaps = 11/79 (13%)
Query: 196 EDYIYWVDIDHGTISRTHRDGTGRENIIEYVETGDPTP-VDQFTDIAVDWIAQNIYWSDP 254
E IYW D I + DGTGR ++E D P + FT + +YW+D
Sbjct: 482 EGKIYWGDAKTDKIEVMNTDGTGRRVLVE-----DKIPHIFGFT-----LLGDYVYWTDW 531
Query: 255 KENVIEVARLTGQYRYVLI 273
+ IE R V+I
Sbjct: 532 QRRSIERVHKRSAEREVII 550
>pdb|3V64|C Chain C, Crystal Structure Of Agrin And Lrp4
pdb|3V64|D Chain D, Crystal Structure Of Agrin And Lrp4
Length = 349
Score = 99.4 bits (246), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 58/195 (29%), Positives = 98/195 (50%), Gaps = 15/195 (7%)
Query: 170 NESKVTQVLGPLSKVSL-------AAKVDFHAAEDYIYWVDIDHGTISRTHRDGTGRENI 222
N + QVL S+ +L A +DFH + ++W D+ T+ R R N+
Sbjct: 51 NRIDIRQVLPHRSEYTLLLNNLENAIALDFHHRRELVFWSDV---TLDRILRANLNGSNV 107
Query: 223 IEYVETGDPTPVDQFTDIAVDWIAQNIYWSDPKENVIEVARLTGQYRYVLISGGVDQPSA 282
E V TG +P +AVDW+ +YW+D + IEVA L G +R VL+ +++P A
Sbjct: 108 EEVVSTGLESP----GGLAVDWVHDKLYWTDSGTSRIEVANLDGAHRKVLLWQSLEKPRA 163
Query: 283 LAVDPESGYLFWSESGKIPLIARAGLDGKKQTILAQEIIMPIKDITLDRKNKRVYWCYSV 342
+A+ P G ++W++ G P I + +DG + I+A + +T+D +R+YW
Sbjct: 164 IALHPMEGTIYWTDWGNTPRIEASSMDGSGRRIIADTHLFWPNGLTIDYAGRRMYW-VDA 222
Query: 343 GSNVLESMDYSGGSK 357
+V+E + G +
Sbjct: 223 KHHVIERANLDGSHR 237
Score = 58.9 bits (141), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 41/141 (29%), Positives = 67/141 (47%), Gaps = 10/141 (7%)
Query: 190 VDFHAAEDYIYWVDIDHG-TISRTHRDGTGRENIIEYVETGDPTPVDQFTDIAVDWIAQN 248
+ H E IYW D + I + DG+GR I + T + + +D+ +
Sbjct: 164 IALHPMEGTIYWTDWGNTPRIEASSMDGSGRRIIAD-------THLFWPNGLTIDYAGRR 216
Query: 249 IYWSDPKENVIEVARLTGQYRYVLISGGVDQPSALAVDPESGYLFWSESGKIPLIARAGL 308
+YW D K +VIE A L G +R +IS G+ P A+ V +S L+W++ + +
Sbjct: 217 MYWVDAKHHVIERANLDGSHRKAVISQGLPHPFAITVFEDS--LYWTDWHTKSINSANKF 274
Query: 309 DGKKQTILAQEIIMPIKDITL 329
GK Q I+ ++ P+ TL
Sbjct: 275 TGKNQEIIRNKLHFPMDIHTL 295
>pdb|3V65|B Chain B, Crystal Structure Of Agrin And Lrp4 Complex
pdb|3V65|D Chain D, Crystal Structure Of Agrin And Lrp4 Complex
Length = 386
Score = 99.0 bits (245), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 58/195 (29%), Positives = 98/195 (50%), Gaps = 15/195 (7%)
Query: 170 NESKVTQVLGPLSKVSL-------AAKVDFHAAEDYIYWVDIDHGTISRTHRDGTGRENI 222
N + QVL S+ +L A +DFH + ++W D+ T+ R R N+
Sbjct: 94 NRIDIRQVLPHRSEYTLLLNNLENAIALDFHHRRELVFWSDV---TLDRILRANLNGSNV 150
Query: 223 IEYVETGDPTPVDQFTDIAVDWIAQNIYWSDPKENVIEVARLTGQYRYVLISGGVDQPSA 282
E V TG +P +AVDW+ +YW+D + IEVA L G +R VL+ +++P A
Sbjct: 151 EEVVSTGLESP----GGLAVDWVHDKLYWTDSGTSRIEVANLDGAHRKVLLWQSLEKPRA 206
Query: 283 LAVDPESGYLFWSESGKIPLIARAGLDGKKQTILAQEIIMPIKDITLDRKNKRVYWCYSV 342
+A+ P G ++W++ G P I + +DG + I+A + +T+D +R+YW
Sbjct: 207 IALHPMEGTIYWTDWGNTPRIEASSMDGSGRRIIADTHLFWPNGLTIDYAGRRMYW-VDA 265
Query: 343 GSNVLESMDYSGGSK 357
+V+E + G +
Sbjct: 266 KHHVIERANLDGSHR 280
Score = 58.9 bits (141), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 41/141 (29%), Positives = 67/141 (47%), Gaps = 10/141 (7%)
Query: 190 VDFHAAEDYIYWVDIDHG-TISRTHRDGTGRENIIEYVETGDPTPVDQFTDIAVDWIAQN 248
+ H E IYW D + I + DG+GR I + T + + +D+ +
Sbjct: 207 IALHPMEGTIYWTDWGNTPRIEASSMDGSGRRIIAD-------THLFWPNGLTIDYAGRR 259
Query: 249 IYWSDPKENVIEVARLTGQYRYVLISGGVDQPSALAVDPESGYLFWSESGKIPLIARAGL 308
+YW D K +VIE A L G +R +IS G+ P A+ V +S L+W++ + +
Sbjct: 260 MYWVDAKHHVIERANLDGSHRKAVISQGLPHPFAITVFEDS--LYWTDWHTKSINSANKF 317
Query: 309 DGKKQTILAQEIIMPIKDITL 329
GK Q I+ ++ P+ TL
Sbjct: 318 TGKNQEIIRNKLHFPMDIHTL 338
>pdb|1IJQ|A Chain A, Crystal Structure Of The Ldl Receptor Ywtd-Egf Domain Pair
pdb|1IJQ|B Chain B, Crystal Structure Of The Ldl Receptor Ywtd-Egf Domain Pair
Length = 316
Score = 80.9 bits (198), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 58/192 (30%), Positives = 89/192 (46%), Gaps = 7/192 (3%)
Query: 166 KYNKNESKVTQVLGPLSKVSLAAKVDFHAAEDYIYWVDIDHGTISRTHRDGTGRENIIEY 225
K + S+ T ++ L V +D A + IYW D+ I T D R + +
Sbjct: 14 KMTLDRSEYTSLIPNLRNV---VALDTEVASNRIYWSDLSQRMICSTQLD---RAHGVSS 67
Query: 226 VETGDPTPVDQFTDIAVDWIAQNIYWSDPKENVIEVARLTGQYRYVLISGGVDQPSALAV 285
+T + +AVDWI NIYW+D + VA G R L +P A+ V
Sbjct: 68 YDTVISRDIQAPDGLAVDWIHSNIYWTDSVLGTVSVADTKGVKRKTLFRENGSKPRAIVV 127
Query: 286 DPESGYLFWSESGKIPLIARAGLDGKKQTILAQEIIMPIKDITLDRKNKRVYWCYSVGSN 345
DP G+++W++ G I + GL+G L E I ITLD + R+YW S +
Sbjct: 128 DPVHGFMYWTDWGTPAKIKKGGLNGVDIYSLVTENIQWPNGITLDLLSGRLYWVDSKLHS 187
Query: 346 VLESMDYSGGSK 357
+ S+D +GG++
Sbjct: 188 I-SSIDVNGGNR 198
>pdb|3P5B|L Chain L, The Structure Of The LdlrPCSK9 COMPLEX REVEALS THE
RECEPTOR IN AN Extended Conformation
Length = 400
Score = 80.5 bits (197), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 59/194 (30%), Positives = 90/194 (46%), Gaps = 11/194 (5%)
Query: 166 KYNKNESKVTQVLGPLSKVSLAAKVDFHAAEDYIYWVDIDHGTISRTHRDGTGRENIIEY 225
K + S+ T ++ L V +D A + IYW D+ I T D R + +
Sbjct: 96 KMTLDRSEYTSLIPNLRNV---VALDTEVASNRIYWSDLSQRMICSTQLD---RAHGVSS 149
Query: 226 VETGDPTPVDQFTDIAVDWIAQNIYWSDPKENVIEVARLTGQYRYVLISGGVDQPSALAV 285
+T + +AVDWI NIYW+D + VA G R L +P A+ V
Sbjct: 150 YDTVISRDIQAPDGLAVDWIHSNIYWTDSVLGTVSVADTKGVKRKTLFRENGSKPRAIVV 209
Query: 286 DPESGYLFWSESGKIPLIARAGLDGKKQTILAQEIIMPIKDITLDRKNKRVYWCYSVGSN 345
DP G+++W++ G I + GL+G L E I ITLD + R+YW V S
Sbjct: 210 DPVHGFMYWTDWGTPAKIKKGGLNGVDIYSLVTENIQWPNGITLDLLSGRLYW---VDSK 266
Query: 346 V--LESMDYSGGSK 357
+ + S+D +GG++
Sbjct: 267 LHSISSIDVNGGNR 280
>pdb|3P5C|L Chain L, The Structure Of The LdlrPCSK9 COMPLEX REVEALS THE
RECEPTOR IN AN Extended Conformation
Length = 440
Score = 79.7 bits (195), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 59/194 (30%), Positives = 90/194 (46%), Gaps = 11/194 (5%)
Query: 166 KYNKNESKVTQVLGPLSKVSLAAKVDFHAAEDYIYWVDIDHGTISRTHRDGTGRENIIEY 225
K + S+ T ++ L V +D A + IYW D+ I T D R + +
Sbjct: 136 KMTLDRSEYTSLIPNLRNV---VALDTEVASNRIYWSDLSQRMICSTQLD---RAHGVSS 189
Query: 226 VETGDPTPVDQFTDIAVDWIAQNIYWSDPKENVIEVARLTGQYRYVLISGGVDQPSALAV 285
+T + +AVDWI NIYW+D + VA G R L +P A+ V
Sbjct: 190 YDTVISRDIQAPDGLAVDWIHSNIYWTDSVLGTVSVADTKGVKRKTLFRENGSKPRAIVV 249
Query: 286 DPESGYLFWSESGKIPLIARAGLDGKKQTILAQEIIMPIKDITLDRKNKRVYWCYSVGSN 345
DP G+++W++ G I + GL+G L E I ITLD + R+YW V S
Sbjct: 250 DPVHGFMYWTDWGTPAKIKKGGLNGVDIYSLVTENIQWPNGITLDLLSGRLYW---VDSK 306
Query: 346 V--LESMDYSGGSK 357
+ + S+D +GG++
Sbjct: 307 LHSISSIDVNGGNR 320
>pdb|3M0C|C Chain C, The X-Ray Crystal Structure Of Pcsk9 In Complex With The
Ldl Receptor
Length = 791
Score = 77.8 bits (190), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 54/170 (31%), Positives = 81/170 (47%), Gaps = 8/170 (4%)
Query: 190 VDFHAAEDYIYWVDIDHGTISRTHRDGTGRENIIEYVETGDPTPVDQFTDIAVDWIAQNI 249
+D A + IYW D+ I T D R + + +T + +AVDWI NI
Sbjct: 429 LDTEVASNRIYWSDLSQRMICSTQLD---RAHGVSSYDTVISRDIQAPDGLAVDWIHSNI 485
Query: 250 YWSDPKENVIEVARLTGQYRYVLISGGVDQPSALAVDPESGYLFWSESGKIPLIARAGLD 309
YW+D + VA G R L +P A+ VDP G+++W++ G I + GL+
Sbjct: 486 YWTDSVLGTVSVADTKGVKRKTLFRENGSKPRAIVVDPVHGFMYWTDWGTPAKIKKGGLN 545
Query: 310 GKKQTILAQEIIMPIKDITLDRKNKRVYWCYSVGSNV--LESMDYSGGSK 357
G L E I ITLD + R+YW V S + + S+D +GG++
Sbjct: 546 GVDIYSLVTENIQWPNGITLDLLSGRLYW---VDSKLHSISSIDVNGGNR 592
>pdb|1N7D|A Chain A, Extracellular Domain Of The Ldl Receptor
Length = 699
Score = 77.0 bits (188), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 54/170 (31%), Positives = 81/170 (47%), Gaps = 8/170 (4%)
Query: 190 VDFHAAEDYIYWVDIDHGTISRTHRDGTGRENIIEYVETGDPTPVDQFTDIAVDWIAQNI 249
+D A + IYW D+ I T D R + + +T + +AVDWI NI
Sbjct: 411 LDTEVASNRIYWSDLSQRMICSTQLD---RAHGVSSYDTVISRDIQAPDGLAVDWIHSNI 467
Query: 250 YWSDPKENVIEVARLTGQYRYVLISGGVDQPSALAVDPESGYLFWSESGKIPLIARAGLD 309
YW+D + VA G R L +P A+ VDP G+++W++ G I + GL+
Sbjct: 468 YWTDSVLGTVSVADTKGVKRKTLFREQGSKPRAIVVDPVHGFMYWTDWGTPAKIKKGGLN 527
Query: 310 GKKQTILAQEIIMPIKDITLDRKNKRVYWCYSVGSNV--LESMDYSGGSK 357
G L E I ITLD + R+YW V S + + S+D +GG++
Sbjct: 528 GVDIYSLVTENIQWPNGITLDLLSGRLYW---VDSKLHSISSIDVNGGNR 574
>pdb|1NPE|A Chain A, Crystal Structure Of Nidogen/laminin Complex
Length = 267
Score = 73.6 bits (179), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 46/161 (28%), Positives = 78/161 (48%), Gaps = 9/161 (5%)
Query: 192 FHAAEDYIYWVDIDHGTISRTHRDGTGRENIIEYVETGDPTPVDQFTDIAVDWIAQNIYW 251
F + +YW DI +I R G G I + G P IA+D + + I+W
Sbjct: 43 FDCVDKVVYWTDISEPSIGRASLHG-GEPTTIIRQDLGSPE------GIALDHLGRTIFW 95
Query: 252 SDPKENVIEVARLTGQYRYVLISGGVDQPSALAVDPESGYLFWSESGKI-PLIARAGLDG 310
+D + + IEVA++ G R VL G+ P + DP G L+W++ + P I + +DG
Sbjct: 96 TDSQLDRIEVAKMDGTQRRVLFDTGLVNPRGIVTDPVRGNLYWTDWNRDNPKIETSHMDG 155
Query: 311 KKQTILAQEIIMPIKDITLDRKNKRVYWCYSVGSNVLESMD 351
+ ILAQ+ + +T D + ++ W G++ E ++
Sbjct: 156 TNRRILAQDNLGLPNGLTFDAFSSQLCWV-DAGTHRAECLN 195
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 27/106 (25%), Positives = 49/106 (46%), Gaps = 1/106 (0%)
Query: 233 PVDQFTDIAVDWIAQNIYWSDPKENVIEVARLTGQYRYVLISGGVDQPSALAVDPESGYL 292
P +A D + + +YW+D E I A L G +I + P +A+D +
Sbjct: 34 PAKVIIGLAFDCVDKVVYWTDISEPSIGRASLHGGEPTTIIRQDLGSPEGIALDHLGRTI 93
Query: 293 FWSESGKIPLIARAGLDGKKQTILAQEIIMPIKDITLDRKNKRVYW 338
FW++S ++ I A +DG ++ +L ++ + I D +YW
Sbjct: 94 FWTDS-QLDRIEVAKMDGTQRRVLFDTGLVNPRGIVTDPVRGNLYW 138
>pdb|1PNS|R Chain R, Crystal Structure Of A Streptomycin Dependent Ribosome
From E. Coli, 30s Subunit Of 70s Ribosome. This File,
1pns, Contains The 30s Subunit, Two Trnas, And One Mrna
Molecule. The 50s Ribosomal Subunit Is In File 1pnu.
pdb|1PNX|R Chain R, Crystal Structure Of The Wild Type Ribosome From E. Coli,
30s Subunit Of 70s Ribosome. This File, 1pnx, Contains
Only Molecules Of The 30s Ribosomal Subunit. The 50s
Subunit Is In The Pdb File 1pny.
pdb|1VOQ|R Chain R, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOS|R Chain R, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOV|R Chain R, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOX|R Chain R, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOZ|R Chain R, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1X18|H Chain H, Contact Sites Of Era Gtpase On The Thermus Thermophilus
30s Subunit
Length = 73
Score = 31.6 bits (70), Expect = 0.73, Method: Composition-based stats.
Identities = 16/28 (57%), Positives = 19/28 (67%)
Query: 293 FWSESGKIPLIARAGLDGKKQTILAQEI 320
F SE+GKI R GL GK+Q ILA+ I
Sbjct: 28 FLSETGKILPRRRTGLSGKEQRILAKTI 55
>pdb|1I94|R Chain R, Crystal Structures Of The Small Ribosomal Subunit With
Tetracycline, Edeine And If3
pdb|1I95|R Chain R, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With Edeine
pdb|1I96|R Chain R, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With The Translation
Initiation Factor If3 (C-Terminal Domain)
pdb|1I97|R Chain R, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With Tetracycline
pdb|2E5L|R Chain R, A Snapshot Of The 30s Ribosomal Subunit Capturing Mrna Via
The Shine- Dalgarno Interaction
pdb|2ZM6|R Chain R, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit
Length = 87
Score = 31.6 bits (70), Expect = 0.73, Method: Composition-based stats.
Identities = 16/28 (57%), Positives = 19/28 (67%)
Query: 293 FWSESGKIPLIARAGLDGKKQTILAQEI 320
F SE+GKI R GL GK+Q ILA+ I
Sbjct: 42 FLSETGKILPRRRTGLSGKEQRILAKTI 69
>pdb|1FKA|R Chain R, Structure Of Functionally Activated Small Ribosomal
Subunit At 3.3 A Resolution
pdb|1FJG|R Chain R, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With The Antibiotics Streptomycin,
Spectinomycin, And Paromomycin
pdb|1G1X|C Chain C, Structure Of Ribosomal Proteins S15, S6, S18, And 16s
Ribosomal Rna
pdb|1G1X|H Chain H, Structure Of Ribosomal Proteins S15, S6, S18, And 16s
Ribosomal Rna
pdb|1HR0|R Chain R, Crystal Structure Of Initiation Factor If1 Bound To The
30s Ribosomal Subunit
pdb|1HNW|R Chain R, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Tetracycline
pdb|1HNX|R Chain R, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Pactamycin
pdb|1HNZ|R Chain R, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Hygromycin B
pdb|1GIX|U Chain U, Crystal Structure Of The Ribosome At 5.5 A Resolution.
This File, 1gix, Contains The 30s Ribosome Subunit,
Three Trna, And Mrna Molecules. 50s Ribosome Subunit Is
In The File 1giy
pdb|1IBK|R Chain R, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With The Antibiotic Paromomycin
pdb|1IBL|R Chain R, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With A Messenger Rna Fragment And
Cognate Transfer Rna Anticodon Stem-Loop Bound At The A
Site And With The Antibiotic Paromomycin
pdb|1IBM|R Chain R, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With A Messenger Rna Fragment And
Cognate Transfer Rna Anticodon Stem-Loop Bound At The A
Site
pdb|1JGO|U Chain U, The Path Of Messenger Rna Through The Ribosome. This File,
1jgo, Contains The 30s Ribosome Subunit, Three Trna, And
Mrna Molecules. 50s Ribosome Subunit Is In The File 1giy
pdb|1JGP|U Chain U, The Path Of Messenger Rna Through The Ribosome. This File,
1jgp, Contains The 30s Ribosome Subunit, Three Trna, And
Mrna Molecules. 50s Ribosome Subunit Is In The File 1giy
pdb|1JGQ|U Chain U, The Path Of Messenger Rna Through The Ribosome. This File,
1jgq, Contains The 30s Ribosome Subunit, Three Trna, And
Mrna Molecules. 50s Ribosome Subunit Is In The File 1giy
pdb|1J5E|R Chain R, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit
pdb|1N32|R Chain R, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Bound To Codon And Near-Cognate Transfer Rna
Anticodon Stem-Loop Mismatched At The First Codon
Position At The A Site With Paromomycin
pdb|1N33|R Chain R, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Bound To Codon And Near-Cognate Transfer Rna
Anticodon Stem-Loop Mismatched At The Second Codon
Position At The A Site With Paromomycin
pdb|1N34|R Chain R, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In The Presence Of Codon And
Crystallographically Disordered Near-Cognate Transfer
Rna Anticodon Stem-Loop Mismatched At The First Codon
Position
pdb|1N36|R Chain R, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In The Presence Of Crystallographically
Disordered Codon And Near-cognate Transfer Rna Anticodon
Stem-loop Mismatched At The Second Codon Position
pdb|1ML5|U Chain U, Structure Of The E. Coli Ribosomal Termination Complex
With Release Factor 2
pdb|1XMO|R Chain R, Crystal Structure Of Mnm5u34t6a37-Trnalysuuu Complexed
With Aag-Mrna In The Decoding Center
pdb|1XMQ|R Chain R, Crystal Structure Of T6a37-Asllysuuu Aaa-Mrna Bound To The
Decoding Center
pdb|1XNQ|R Chain R, Structure Of An Inosine-Adenine Wobble Base Pair Complex
In The Context Of The Decoding Center
pdb|1XNR|R Chain R, Crystal Structure Of An Inosine-Cytosine Wobble Base Pair
In The Context Of The Decoding Center
pdb|1YL4|U Chain U, Crystal Structure Of 70s Ribosome With Thrs Operator And
Trnas. 30s Subunit. The Coordinates For The 50s Subunit
Are In The Pdb Entry 1yl3
pdb|2B64|R Chain R, 30s Ribosomal Subunit, Trnas, Mrna And Release Factor Rf1
From A Crystal Structure Of The Whole Ribosomal Complex.
This File Contains The 30s Subunit, Trnas, Mrna And
Release Factor Rf1 From A Crystal Structure Of The Whole
Ribosomal Complex". The Entire Crystal Structure
Contains One 70s Ribosome, Trnas, Mrna And Release
Factor Rf1 And Is Described In Remark 400.
pdb|2B9M|R Chain R, 30s Ribosomal Subunit, Trnas, Mrna And Release Factor Rf2
From A Crystal Structure Of The Whole Ribosomal Complex.
This File Contains The 30s Ribosomal Subunit, Trnas,
Mrna And Release Factor Rf2 From A Crystal Structure Of
The Whole Ribosomal Complex". The Entire Crystal
Structure Contains One 70s Ribosome, Trnas, Mrna And
Release Factor Rf2 And Is Described In Remark 400.
pdb|2B9O|R Chain R, 30s Ribosomal Subunit, Trnas And Mrna From A Crystal
Structure Of The Whole Ribosomal Complex With A Stop
Codon In The A-Site. This File Contains The 30s Subunit,
Trnas And Mrna From A Crystal Structure Of The Whole
Ribosomal Complex With A Stop Codon In The A-Site And Is
Described In Remark 400.
pdb|2F4V|R Chain R, 30s Ribosome + Designer Antibiotic
pdb|2HHH|R Chain R, Crystal Structure Of Kasugamycin Bound To The 30s
Ribosomal Subunit
pdb|2HGI|U Chain U, Crystal Structure Of The 70s Thermus Thermophilus Ribosome
Showing How The 16s 3'-End Mimicks Mrna E And P Codons.
This Entry 2hgi Contains 30s Ribosomal Subunit. The 50s
Ribosomal Subunit Can Be Found In Pdb Entry 2hgj.
pdb|2HGP|U Chain U, Crystal Structure Of The 70s Thermus Thermophilus Ribosome
With Translocated And Rotated Shine-Dalgarno Duplex.
This Entry 2hgp Contains 30s Ribosomal Subunit. The 50s
Ribosomal Subunit Can Be Found In Pdb Entry 2hgq.
pdb|2HGR|U Chain U, 70s T.Th. Ribosome Functional Complex With Mrna And E- And
P-Site Trnas At 4.5a. This Entry 2hgr Contains 30s
Ribosomal Subunit. The 50s Ribosomal Subunit Can Be
Found In Pdb Entry 2hgu.
pdb|2VQE|R Chain R, Modified Uridines With C5-methylene Substituents At The
First Position Of The Trna Anticodon Stabilize U-g
Wobble Pairing During Decoding
pdb|2VQF|R Chain R, Modified Uridines With C5-Methylene Substituents At The
First Position Of The Trna Anticodon Stabilize U-G
Wobble Pairing During Decoding
pdb|3OTO|R Chain R, Crystal Structure Of The 30s Ribosomal Subunit From A Ksga
Mutant Of Thermus Thermophilus (Hb8)
pdb|3T1H|R Chain R, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Complexed With A Human Anti-Codon Stem Loop
(Hasl) Of Transfer Rna Lysine 3 (Trnalys3) Bound To An
Mrna With An Aaa-Codon In The A-Site And Paromomycin
pdb|3T1Y|R Chain R, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Complexed With A Human Anti-Codon Stem Loop
(Hasl) Of Transfer Rna Lysine 3 (Trnalys3) Bound To An
Mrna With An Aag-Codon In The A-Site And Paromomycin
pdb|4AQY|R Chain R, Structure Of Ribosome-Apramycin Complexes
Length = 88
Score = 31.6 bits (70), Expect = 0.73, Method: Composition-based stats.
Identities = 16/28 (57%), Positives = 19/28 (67%)
Query: 293 FWSESGKIPLIARAGLDGKKQTILAQEI 320
F SE+GKI R GL GK+Q ILA+ I
Sbjct: 43 FLSETGKILPRRRTGLSGKEQRILAKTI 70
>pdb|1UZD|C Chain C, Chlamydomonas,Spinach Chimeric Rubisco
pdb|1UZD|F Chain F, Chlamydomonas,Spinach Chimeric Rubisco
pdb|1UZD|I Chain I, Chlamydomonas,Spinach Chimeric Rubisco
pdb|1UZD|J Chain J, Chlamydomonas,Spinach Chimeric Rubisco
pdb|1UZD|M Chain M, Chlamydomonas,Spinach Chimeric Rubisco
pdb|1UZD|P Chain P, Chlamydomonas,Spinach Chimeric Rubisco
pdb|1UZD|T Chain T, Chlamydomonas,Spinach Chimeric Rubisco
pdb|1UZD|W Chain W, Chlamydomonas,Spinach Chimeric Rubisco
Length = 134
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 24/43 (55%), Gaps = 2/43 (4%)
Query: 178 LGPLSKVSLAAKVDFHAAEDYIYWVDI--DHGTISRTHRDGTG 218
L PL+ +AA+VD+ A +I ++ DHG + R H + G
Sbjct: 18 LPPLTDEQIAAQVDYIVANGWIPCLEFATDHGFVYREHHNSPG 60
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
0.317 0.135 0.390
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,305,085
Number of Sequences: 62578
Number of extensions: 485461
Number of successful extensions: 1239
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 18
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1121
Number of HSP's gapped (non-prelim): 60
length of query: 377
length of database: 14,973,337
effective HSP length: 100
effective length of query: 277
effective length of database: 8,715,537
effective search space: 2414203749
effective search space used: 2414203749
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 52 (24.6 bits)