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= 023372
(283 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1VCR|A Chain A, An Icosahedral Assembly Of Light-Harvesting Chlorophyll AB
Protein Complex From Pea Thylakoid Membranes
Length = 232
Score = 188 bits (478), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 107/209 (51%), Positives = 133/209 (63%), Gaps = 19/209 (9%)
Query: 75 WYGPDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSK----------WA 124
WYGPDR +L E P YLTGE PGDYG+D GLS P+ FSK WA
Sbjct: 16 WYGPDRVKYLGP---FSGESPSYLTGEFPGDYGWDTAGLSADPETFSKNRELEVIHSRWA 72
Query: 125 MLGAAGFIIPEAFNKFGANCGPEAVWFKTGALLLDGNTLNYFGKN--IPINLVFAVIA-E 181
MLGA G + PE ++ G G EAVWFK G+ + L+Y G + + A+ A +
Sbjct: 73 MLGALGCVFPELLSRNGVKFG-EAVWFKAGSQIFSEGGLDYLGNPSLVHAQSILAIWATQ 131
Query: 182 IVLVGGAEYYRITNGL--DLEDKLHPGGPFDPLGLAKDPDQFALLKVKEIKNGRLAMFAM 239
++L+G E YRI G ++ D L+PGG FDPLGLA DP+ FA LKVKE+KNGRLAMF+M
Sbjct: 132 VILMGAVEGYRIAGGPLGEVVDPLYPGGSFDPLGLADDPEAFAELKVKELKNGRLAMFSM 191
Query: 240 LGFFLQAYVTGEGPVENLAKHLSDPFANN 268
GFF+QA VTG+GP+ENLA HL+DP NN
Sbjct: 192 FGFFVQAIVTGKGPLENLADHLADPVNNN 220
>pdb|2BHW|A Chain A, Pea Light-Harvesting Complex Ii At 2.5 Angstrom Resolution
pdb|2BHW|B Chain B, Pea Light-Harvesting Complex Ii At 2.5 Angstrom Resolution
pdb|2BHW|C Chain C, Pea Light-Harvesting Complex Ii At 2.5 Angstrom Resolution
Length = 232
Score = 188 bits (478), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 107/209 (51%), Positives = 133/209 (63%), Gaps = 19/209 (9%)
Query: 75 WYGPDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSK----------WA 124
WYGPDR +L E P YLTGE PGDYG+D GLS P+ FSK WA
Sbjct: 16 WYGPDRVKYLGP---FSGESPSYLTGEFPGDYGWDTAGLSADPETFSKNRELEVIHSRWA 72
Query: 125 MLGAAGFIIPEAFNKFGANCGPEAVWFKTGALLLDGNTLNYFGKN--IPINLVFAVIA-E 181
MLGA G + PE ++ G G EAVWFK G+ + L+Y G + + A+ A +
Sbjct: 73 MLGALGSVFPELLSRNGVKFG-EAVWFKAGSQIFSEGGLDYLGNPSLVHAQSILAIWATQ 131
Query: 182 IVLVGGAEYYRITNGL--DLEDKLHPGGPFDPLGLAKDPDQFALLKVKEIKNGRLAMFAM 239
++L+G E YRI G ++ D L+PGG FDPLGLA DP+ FA LKVKE+KNGRLAMF+M
Sbjct: 132 VILMGAVEGYRIAGGPLGEVVDPLYPGGSFDPLGLADDPEAFAELKVKELKNGRLAMFSM 191
Query: 240 LGFFLQAYVTGEGPVENLAKHLSDPFANN 268
GFF+QA VTG+GP+ENLA HL+DP NN
Sbjct: 192 FGFFVQAIVTGKGPLENLADHLADPVNNN 220
>pdb|1RWT|A Chain A, Crystal Structure Of Spinach Major Light-harvesting
Complex At 2.72 Angstrom Resolution
pdb|1RWT|B Chain B, Crystal Structure Of Spinach Major Light-harvesting
Complex At 2.72 Angstrom Resolution
pdb|1RWT|C Chain C, Crystal Structure Of Spinach Major Light-harvesting
Complex At 2.72 Angstrom Resolution
pdb|1RWT|D Chain D, Crystal Structure Of Spinach Major Light-harvesting
Complex At 2.72 Angstrom Resolution
pdb|1RWT|E Chain E, Crystal Structure Of Spinach Major Light-harvesting
Complex At 2.72 Angstrom Resolution
pdb|1RWT|F Chain F, Crystal Structure Of Spinach Major Light-harvesting
Complex At 2.72 Angstrom Resolution
pdb|1RWT|G Chain G, Crystal Structure Of Spinach Major Light-harvesting
Complex At 2.72 Angstrom Resolution
pdb|1RWT|H Chain H, Crystal Structure Of Spinach Major Light-harvesting
Complex At 2.72 Angstrom Resolution
pdb|1RWT|I Chain I, Crystal Structure Of Spinach Major Light-harvesting
Complex At 2.72 Angstrom Resolution
pdb|1RWT|J Chain J, Crystal Structure Of Spinach Major Light-harvesting
Complex At 2.72 Angstrom Resolution
Length = 232
Score = 187 bits (474), Expect = 7e-48, Method: Compositional matrix adjust.
Identities = 107/209 (51%), Positives = 132/209 (63%), Gaps = 19/209 (9%)
Query: 75 WYGPDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSK----------WA 124
WYGPDR +L E P YLTGE PGDYG+D GLS P+ F+K WA
Sbjct: 16 WYGPDRVKYLGP---FSGESPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWA 72
Query: 125 MLGAAGFIIPEAFNKFGANCGPEAVWFKTGALLLDGNTLNYFGKN--IPINLVFAVIA-E 181
MLGA G + PE + G G EAVWFK G+ + L+Y G + + A+ A +
Sbjct: 73 MLGALGCVFPELLARNGVKFG-EAVWFKAGSQIFSEGGLDYLGNPSLVHAQSILAIWACQ 131
Query: 182 IVLVGGAEYYRITNGL--DLEDKLHPGGPFDPLGLAKDPDQFALLKVKEIKNGRLAMFAM 239
++L+G E YRI G ++ D L+PGG FDPLGLA DP+ FA LKVKEIKNGRLAMF+M
Sbjct: 132 VILMGAVEGYRIAGGPLGEVVDPLYPGGSFDPLGLADDPEAFAELKVKEIKNGRLAMFSM 191
Query: 240 LGFFLQAYVTGEGPVENLAKHLSDPFANN 268
GFF+QA VTG+GP+ENLA HL+DP NN
Sbjct: 192 FGFFVQAIVTGKGPLENLADHLADPVNNN 220
>pdb|2WSC|1 Chain 1, Improved Model Of Plant Photosystem I
pdb|2WSE|1 Chain 1, Improved Model Of Plant Photosystem I
pdb|2WSF|1 Chain 1, Improved Model Of Plant Photosystem I
Length = 241
Score = 125 bits (313), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 78/206 (37%), Positives = 108/206 (52%), Gaps = 22/206 (10%)
Query: 81 RIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDF----------SKWAMLGAAG 130
RI + + P YL G PGD+G+DP GL + P + +WAML G
Sbjct: 41 RIRMAAHWMPGEPRPAYLDGSAPGDFGFDPLGLGEVPANLERYKESELIHCRWAMLAVPG 100
Query: 131 FIIPEAFNKFGANCGPEAVWFKTGALL-LDGNTLNYFGKNIPINLVFAVIA-EIVLVGGA 188
++PEA +G W K L G Y G +P + ++A E + +
Sbjct: 101 ILVPEALG-YGN-------WVKAQEWAALPGGQATYLGNPVPWGTLPTILAIEFLAIAFV 152
Query: 189 EYYRITNGLDLEDKLHPGGPFDPLGLAKDPDQFALLKVKEIKNGRLAMFAMLGFFL-QAY 247
E+ R D E K +PGG FDPLG +KDP + LKVKEIKNGRLA+ A +GF + Q+
Sbjct: 153 EHQRSMEK-DPEKKKYPGGAFDPLGYSKDPKKLEELKVKEIKNGRLALLAFVGFCVQQSA 211
Query: 248 VTGEGPVENLAKHLSDPFANNLLTVI 273
G GP+ENLA HL+DP+ NN+ ++
Sbjct: 212 YPGTGPLENLATHLADPWHNNIGDIV 237
>pdb|2O01|1 Chain 1, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 187
Score = 123 bits (309), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 76/188 (40%), Positives = 102/188 (54%), Gaps = 22/188 (11%)
Query: 95 PEYLTGEVPGDYGYDPFGLSKKPDDF----------SKWAMLGAAGFIIPEAFNKFGANC 144
P YL G PGD+G+DP GL + P + +WAML G ++PEA +G
Sbjct: 7 PAYLDGSAPGDFGFDPLGLGEVPANLERYKESELIHCRWAMLAVPGILVPEALG-YGN-- 63
Query: 145 GPEAVWFKTGALL-LDGNTLNYFGKNIPINLVFAVIA-EIVLVGGAEYYRITNGLDLEDK 202
W K L G Y G +P + ++A E + + E+ R D E K
Sbjct: 64 -----WVKAQEWAALPGGQATYLGNPVPWGTLPTILAIEFLAIAFVEHQRSMEK-DPEKK 117
Query: 203 LHPGGPFDPLGLAKDPDQFALLKVKEIKNGRLAMFAMLGFFL-QAYVTGEGPVENLAKHL 261
+PGG FDPLG +KDP + LKVKEIKNGRLA+ A +GF + Q+ G GP+ENLA HL
Sbjct: 118 KYPGGAFDPLGYSKDPKKLEELKVKEIKNGRLALLAFVGFCVQQSAYPGTGPLENLATHL 177
Query: 262 SDPFANNL 269
+DP+ NN+
Sbjct: 178 ADPWHNNI 185
>pdb|2WSC|3 Chain 3, Improved Model Of Plant Photosystem I
pdb|2WSE|3 Chain 3, Improved Model Of Plant Photosystem I
pdb|2WSF|3 Chain 3, Improved Model Of Plant Photosystem I
Length = 276
Score = 122 bits (307), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 85/213 (39%), Positives = 113/213 (53%), Gaps = 41/213 (19%)
Query: 96 EYLTGEVPGDYGYDPFGLSK--------KPDDFS-------KWAMLGAAGFIIPEAFNKF 140
YL G +PGDYG+DP GLS +P + ++AMLGA G I PE K
Sbjct: 67 SYLDGSLPGDYGFDPLGLSDPEGTGGFIEPKWLAYGEIINGRYAMLGAVGAIAPEILGKA 126
Query: 141 GANCGPEAV-WFKTGALLLDGNTLNYFGKNIPINLVFAVIAEIVLVGGAEYYRITNG--- 196
G A+ WF+TG + T NY+ + + + E+ L+G AE+ R +
Sbjct: 127 GLIPQETALPWFRTG-FIPPAGTYNYWADSYTL-----FVFEMALMGFAEHRRFQDWAKP 180
Query: 197 --------LDLEDKL-------HPGGPF-DPLGLAKDPDQFALLKVKEIKNGRLAMFAML 240
L LE L +PGGPF +PLG KD LK+KE+KNGRLAM A+L
Sbjct: 181 GSMGKQYFLGLEKGLGGSGEPAYPGGPFFNPLGFGKDEKSLKDLKLKEVKNGRLAMLAIL 240
Query: 241 GFFLQAYVTGEGPVENLAKHLSDPFANNLLTVI 273
G+F+QA VTG GP +NL HL+DP NN+LT +
Sbjct: 241 GYFVQALVTGVGPYQNLLDHLTDPVHNNILTSL 273
>pdb|3PL9|A Chain A, Crystal Structure Of Spinach Minor Light-Harvesting
Complex Cp29 At 2.80 Angstrom Resolution
Length = 243
Score = 113 bits (283), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 80/240 (33%), Positives = 119/240 (49%), Gaps = 52/240 (21%)
Query: 76 YGPDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSKWAMLGA------- 128
+ DR ++ P ++ PEYL G + GDYG+DPFGL KP ++ ++ G
Sbjct: 7 FSTDRPLWYP-----GAKAPEYLDGSLVGDYGFDPFGLG-KPAEYLQYDYDGLDQNLAKN 60
Query: 129 -AGFIIP----------------------EAFNKFGANCGPEAVWFKTGALLLDGNT--- 162
AG II + F + G A+ GAL ++G T
Sbjct: 61 LAGDIIGTRTESADVKSTSLQPYSEVFGLQRFRECELIHGRWAMLATLGALTVEGLTGIT 120
Query: 163 ------------LNYFGKNIPINLVFAVIAEIVLVGGAEYYRITNGLDLEDKLHPGGPFD 210
+Y G+ +P ++ + E++++G E+ R LD E +L+PGG FD
Sbjct: 121 WQDAGKVELIEGSSYLGQPLPFSMTTLIWIEVLVIGYIEFQRNAE-LDTEKRLYPGGTFD 179
Query: 211 PLGLAKDPDQFALLKVKEIKNGRLAMFAMLGFFLQAYVTGEGPVENLAKHLSDPFANNLL 270
PLGLA DP++ +L++ EIK+ RLAM LGF +QA VTG+GP+ N HLSDP +L
Sbjct: 180 PLGLASDPEKKPILQLAEIKHARLAMVGFLGFAVQAAVTGKGPLNNWVTHLSDPLHTTIL 239
>pdb|2WSC|2 Chain 2, Improved Model Of Plant Photosystem I
pdb|2WSE|2 Chain 2, Improved Model Of Plant Photosystem I
pdb|2WSF|2 Chain 2, Improved Model Of Plant Photosystem I
Length = 269
Score = 112 bits (281), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 81/219 (36%), Positives = 103/219 (47%), Gaps = 48/219 (21%)
Query: 78 PDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDF----------SKWAMLG 127
PDR ++ P S P +L G +PGD+G+DP GL P+ S+WAMLG
Sbjct: 62 PDRPLWFPG-----STPPPWLDGSLPGDFGFDPLGLGSDPESLRWNVQAELVHSRWAMLG 116
Query: 128 AAGFIIPEAFNKFGANCGPEAVWFKTGALLLDGNTLNYFGKNIPINLVFAVIAEIVLVGG 187
AAG IPE K G P W+ G +T F I E+V +G
Sbjct: 117 AAGIFIPEFLTKLGILNTPS--WYTAGEQEYFTDTTTLF------------IVELVFIGW 162
Query: 188 AEYYRIT----------------NGLDLEDKLHPGG-PFDPLGL-AKDPDQFALLKVKEI 229
AE R N L D +PGG FDPLG + P + L+ KEI
Sbjct: 163 AEGRRWADILNPGCVNTDPIFPNNKLTGTDVGYPGGLWFDPLGWGSASPQKLKELRTKEI 222
Query: 230 KNGRLAMFAMLGFFLQAYVTGEGPVENL-AKHLSDPFAN 267
KNGRLAM A++G + Q TG GP++NL A HL+DP A
Sbjct: 223 KNGRLAMLAVMGAWFQHIYTGTGPIDNLFAAHLADPHAT 261
>pdb|2O01|2 Chain 2, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 186
Score = 112 bits (279), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 76/198 (38%), Positives = 96/198 (48%), Gaps = 42/198 (21%)
Query: 95 PEYLTGEVPGDYGYDPFGLSKKPDDF----------SKWAMLGAAGFIIPEAFNKFGANC 144
PE+L G +PGD+G+DP GLS P+ S+WAMLGAAG IPE K G
Sbjct: 1 PEWLDGSLPGDFGFDPLGLSSDPESLRWNVQAELVHSRWAMLGAAGIFIPEFLTKLGILN 60
Query: 145 GPEAVWFKTGALLLDGNTLNYFGKNIPINLVFAVIAEIVLVGGAEYYRIT---------- 194
P W+ G +T F I E+V +G AE R
Sbjct: 61 TPS--WYTAGEQEYFTDTTTLF------------IVELVFIGWAEGRRWADILNPGCVNT 106
Query: 195 ------NGLDLEDKLHPGG-PFDPLGL-AKDPDQFALLKVKEIKNGRLAMFAMLGFFLQA 246
N L D +PGG FDPLG + P + L+ KEIKNGRLAM A++G + Q
Sbjct: 107 DPIFPNNKLTGTDVGYPGGLWFDPLGWGSASPQKLKELRTKEIKNGRLAMLAVMGAWFQH 166
Query: 247 YVTGEGPVENLAKHLSDP 264
TG GP++NL HL+DP
Sbjct: 167 IYTGTGPIDNLFAHLADP 184
>pdb|3LW5|1 Chain 1, Improved Model Of Plant Photosystem I
Length = 170
Score = 111 bits (277), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 70/177 (39%), Positives = 95/177 (53%), Gaps = 22/177 (12%)
Query: 102 VPGDYGYDPFGLSKKPDDF----------SKWAMLGAAGFIIPEAFNKFGANCGPEAVWF 151
PGD+G+DP GL + P + +WAML G ++PEA +G W
Sbjct: 2 APGDFGFDPLGLGEVPANLERYKESELIHCRWAMLAVPGILVPEALG-YGN-------WV 53
Query: 152 KTGALL-LDGNTLNYFGKNIPINLVFAVIA-EIVLVGGAEYYRITNGLDLEDKLHPGGPF 209
K L G Y G +P + ++A E + + E+ R D E K +PGG F
Sbjct: 54 KAQEWAALPGGQATYLGNPVPWGTLPTILAIEFLAIAFVEHQRSMEK-DPEKKKYPGGAF 112
Query: 210 DPLGLAKDPDQFALLKVKEIKNGRLAMFAMLGFFL-QAYVTGEGPVENLAKHLSDPF 265
DPLG +KDP + LKVKEIKNGRLA+ A +GF + Q+ G GP+ENLA HL+DP+
Sbjct: 113 DPLGYSKDPKKLEELKVKEIKNGRLALLAFVGFCVQQSAYPGTGPLENLATHLADPW 169
>pdb|2WSC|4 Chain 4, Improved Model Of Plant Photosystem I
pdb|2WSE|4 Chain 4, Improved Model Of Plant Photosystem I
pdb|2WSF|4 Chain 4, Improved Model Of Plant Photosystem I
Length = 251
Score = 102 bits (255), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 70/205 (34%), Positives = 104/205 (50%), Gaps = 39/205 (19%)
Query: 95 PEYLTGEVPGDYGYDPFGLSKKPDDFS----------KWAMLGAAGFIIPEAFNKFGANC 144
P YLTG +PGD G+DP GL++ P++ +WAMLG AG ++PE F G
Sbjct: 63 PGYLTGSLPGDNGFDPLGLAEDPENLRWFVQAELVNGRWAMLGVAGMLLPEVFTSIGIIN 122
Query: 145 GPEAVWFKTGALLLDGNTLNYFGKNIPINLVFAVIAEIVLVGGAEYYRITN-GLDLEDKL 203
P+ W+ G YF + + ++ +++ V + + I N G +D +
Sbjct: 123 VPK--WYAAG-------KEEYFASSSTLFVIEFILSHYVEI--RRWQDIKNPGSVNQDPI 171
Query: 204 ------------HPGGPFDPLGLAKDPDQFALLKVKEIKNGRLAMFAMLGFFLQAYVTGE 251
+PGG F+PL A + K KEI NGRL M A LGF +Q VTG+
Sbjct: 172 FKQYSLPAGEVGYPGGIFNPLNFAPTLEA----KEKEIANGRL-MLAFLGFIIQHNVTGK 226
Query: 252 GPVENLAKHLSDPFANNLLTVISGN 276
GP +NL +H+SDP+ N ++ + GN
Sbjct: 227 GPFDNLLQHISDPWHNTIVQTLGGN 251
>pdb|2O01|3 Chain 3, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 165
Score = 93.2 bits (230), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 66/161 (40%), Positives = 88/161 (54%), Gaps = 26/161 (16%)
Query: 122 KWAMLGAAGFIIPEAFNKFGANCGPEAV-WFKTGALLLDGNTLNYFGKNIPINLVFAVIA 180
++AMLGAAG I PE K G A+ WF+TG + G T Y+ N + +
Sbjct: 11 RFAMLGAAGAIAPEILGKAGLIPAETALPWFQTGVIPPAG-TYTYWADNYTL-----FVL 64
Query: 181 EIVLVGGAEYYRITNG-----------LDLEDKL-------HPGGPF-DPLGLAKDPDQF 221
E+ L+G AE+ R+ + L LE L +PGGPF +PLG KD
Sbjct: 65 EMALMGFAEHRRLQDWYNPGSMGKQYFLGLEKGLAGSGNPAYPGGPFFNPLGFGKDEKSL 124
Query: 222 ALLKVKEIKNGRLAMFAMLGFFLQAYVTGEGPVENLAKHLS 262
LK+KE+KNGRLAM A+LG+F+Q VTG GP +NL HL+
Sbjct: 125 KELKLKEVKNGRLAMLAILGYFIQGLVTGVGPYQNLLDHLA 165
>pdb|3LW5|2 Chain 2, Improved Model Of Plant Photosystem I
Length = 176
Score = 87.8 bits (216), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 62/162 (38%), Positives = 77/162 (47%), Gaps = 32/162 (19%)
Query: 121 SKWAMLGAAGFIIPEAFNKFGANCGPEAVWFKTGALLLDGNTLNYFGKNIPINLVFAVIA 180
S+WAMLGAAG IPE K G P W+ G +T F I
Sbjct: 17 SRWAMLGAAGIFIPEFLTKLGILNTPS--WYTAGEQEYFTDTTTLF------------IV 62
Query: 181 EIVLVGGAEYYRIT----------------NGLDLEDKLHPGG-PFDPLGL-AKDPDQFA 222
E+V +G AE R N L D +PGG FDPLG + P +
Sbjct: 63 ELVFIGWAEGRRWADILNPGCVNTDPIFPNNKLTGTDVGYPGGLWFDPLGWGSASPQKLK 122
Query: 223 LLKVKEIKNGRLAMFAMLGFFLQAYVTGEGPVENLAKHLSDP 264
L+ KEIKNGRLAM A++G + Q TG GP++NL HL+DP
Sbjct: 123 ELRTKEIKNGRLAMLAVMGAWFQHIYTGTGPIDNLFAHLADP 164
>pdb|3LW5|3 Chain 3, Improved Model Of Plant Photosystem I
Length = 172
Score = 85.5 bits (210), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 62/156 (39%), Positives = 82/156 (52%), Gaps = 26/156 (16%)
Query: 121 SKWAMLGAAGFIIPEAFNKFGANCGPEAV-WFKTGALLLDGNTLNYFGKNIPINLVFAVI 179
++AMLGA G I PE K G A+ WF+TG + G T NY+ N + +
Sbjct: 23 GRFAMLGAVGAIAPEYLGKVGLIPQETALAWFQTGVIPPAG-TYNYWADNYTL-----FV 76
Query: 180 AEIVLVGGAEYYRITNG-----------LDLEDKL-------HPGGPF-DPLGLAKDPDQ 220
E+ L+G AE+ R + L LE +PGGPF +PLG KD
Sbjct: 77 LEMALMGFAEHRRFQDWAKPGSMGKQYFLGLEKGFGGSGNPAYPGGPFFNPLGFGKDEKS 136
Query: 221 FALLKVKEIKNGRLAMFAMLGFFLQAYVTGEGPVEN 256
LK+KE+KNGRLAM A+LG+F+Q VTG GP +N
Sbjct: 137 LKELKLKEVKNGRLAMLAILGYFIQGLVTGVGPYQN 172
>pdb|2O01|4 Chain 4, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 165
Score = 80.9 bits (198), Expect = 8e-16, Method: Compositional matrix adjust.
Identities = 55/165 (33%), Positives = 83/165 (50%), Gaps = 28/165 (16%)
Query: 122 KWAMLGAAGFIIPEAFNKFGANCGPEAVWFKTGALLLDGNTLNYFGKNIPINLVFAVIAE 181
+WAMLG AG ++PE F G P+ W+ G YF + + ++ +++
Sbjct: 16 RWAMLGVAGMLLPEVFTSIGIINVPK--WYAAG-------KEEYFASSSTLFVIEFILSH 66
Query: 182 IVLVGGAEYYRITN-GLDLEDKL------------HPGGPFDPLGLAKDPDQFALLKVKE 228
V + + I N G +D + +PGG F+PL A + K KE
Sbjct: 67 YVEI--RRWQDIKNPGSVNQDPIFKQYSLPAGEVGYPGGIFNPLNFAPTLEA----KEKE 120
Query: 229 IKNGRLAMFAMLGFFLQAYVTGEGPVENLAKHLSDPFANNLLTVI 273
I NGRLAM A LGF +Q VTG+GP +NL +H+SDP+ N ++ +
Sbjct: 121 IANGRLAMLAFLGFIIQHNVTGKGPFDNLLQHISDPWHNTIVQTL 165
>pdb|3LW5|4 Chain 4, Improved Model Of Plant Photosystem I
Length = 166
Score = 73.9 bits (180), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 54/162 (33%), Positives = 81/162 (50%), Gaps = 29/162 (17%)
Query: 122 KWAMLGAAGFIIPEAFNKFGANCGPEAVWFKTGALLLDGNTLNYFGKNIPINLVFAVIAE 181
+WAMLG AG ++PE F G P+ W+ G YF + + ++ +++
Sbjct: 20 RWAMLGVAGMLLPEVFTSIGIINVPK--WYAAG-------KEEYFASSSTLFVIEFILSH 70
Query: 182 IVLVGGAEYYRITN-GLDLEDKL------------HPGGPFDPLGLAKDPDQFALLKVKE 228
V + + I N G +D + +PGG F+PL A + K KE
Sbjct: 71 YVEI--RRWQDIKNPGSVNQDPIFKQYSLPAGEVGYPGGIFNPLNFAPTLEA----KEKE 124
Query: 229 IKNGRLAMFAMLGFFLQAYVTGEGPVENLAKHLSDPFANNLL 270
I NGRL M A LGF +Q VTG+GP +NL +H+SDP+ N ++
Sbjct: 125 IANGRL-MLAFLGFIIQHNVTGKGPFDNLLQHISDPWHNTIV 165
Score = 27.7 bits (60), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 19/41 (46%)
Query: 214 LAKDPDQFALLKVKEIKNGRLAMFAMLGFFLQAYVTGEGPV 254
LA+DP+ E+ NGR AM + G L T G +
Sbjct: 1 LAEDPENLRWFVQAELVNGRWAMLGVAGMLLPEVFTSIGII 41
>pdb|3UBD|A Chain A, Structure Of N-Terminal Domain Of Rsk2 Kinase In Complex
With Flavonoid Glycoside Sl0101
Length = 304
Score = 33.9 bits (76), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 45/100 (45%), Gaps = 6/100 (6%)
Query: 87 GLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSK--WAMLGAAGFIIPEAFNKFGANC 144
G++ R PE + + G FGLSK+ D K ++ G ++ PE N+ G
Sbjct: 146 GIIYRDLKPENILLDEEGHIKLTDFGLSKESIDHEKKAYSFCGTVEYMAPEVVNRRGHT- 204
Query: 145 GPEAVWFKTGALLLD--GNTLNYFGKNIPINLVFAVIAEI 182
A W+ G L+ + TL + GK+ + + A++
Sbjct: 205 -QSADWWSFGVLMFEMLTGTLPFQGKDRKETMTMILKAKL 243
>pdb|4EL9|A Chain A, Structure Of N-Terminal Kinase Domain Of Rsk2 With Afzelin
pdb|4GUE|A Chain A, Structure Of N-terminal Kinase Domain Of Rsk2 With
Flavonoid Glycoside Quercitrin
Length = 305
Score = 33.9 bits (76), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 45/100 (45%), Gaps = 6/100 (6%)
Query: 87 GLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSK--WAMLGAAGFIIPEAFNKFGANC 144
G++ R PE + + G FGLSK+ D K ++ G ++ PE N+ G
Sbjct: 147 GIIYRDLKPENILLDEEGHIKLTDFGLSKESIDHEKKAYSFCGTVEYMAPEVVNRRGHT- 205
Query: 145 GPEAVWFKTGALLLD--GNTLNYFGKNIPINLVFAVIAEI 182
A W+ G L+ + TL + GK+ + + A++
Sbjct: 206 -QSADWWSFGVLMFEMLTGTLPFQGKDRKETMTMILKAKL 244
>pdb|3G51|A Chain A, Structural Diversity Of The Active Conformation Of The N-
Terminal Kinase Domain Of P90 Ribosomal S6 Kinase 2
Length = 325
Score = 33.9 bits (76), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 45/100 (45%), Gaps = 6/100 (6%)
Query: 87 GLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSK--WAMLGAAGFIIPEAFNKFGANC 144
G++ R PE + + G FGLSK+ D K ++ G ++ PE N+ G
Sbjct: 146 GIIYRDLKPENILLDEEGHIKLTDFGLSKESIDHEKKAYSFCGTVEYMAPEVVNRRGHTQ 205
Query: 145 GPEAVWFKTGALLLD--GNTLNYFGKNIPINLVFAVIAEI 182
A W+ G L+ + TL + GK+ + + A++
Sbjct: 206 S--ADWWSFGVLMFEMLTGTLPFQGKDRKETMTMILKAKL 243
>pdb|2Z7Q|A Chain A, Crystal Structure Of The N-Terminal Kinase Domain Of Human
Rsk-1 Bound To Amp-Pcp
pdb|2Z7R|A Chain A, Crystal Structure Of The N-Terminal Kinase Domain Of Human
Rsk1 Bound To Staurosporine
pdb|2Z7S|A Chain A, Crystal Structure Of The N-Terminal Kinase Domain Of Human
Rsk1 Bound To Purvalnol A
Length = 321
Score = 32.7 bits (73), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 25/100 (25%), Positives = 46/100 (46%), Gaps = 6/100 (6%)
Query: 87 GLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSK--WAMLGAAGFIIPEAFNKFGANC 144
G++ R PE + + G FGLSK+ D K ++ G ++ PE N+ G +
Sbjct: 150 GIIYRDLKPENILLDEEGHIKLTDFGLSKEAIDHEKKAYSFCGTVEYMAPEVVNRQGHSH 209
Query: 145 GPEAVWFKTGALLLD--GNTLNYFGKNIPINLVFAVIAEI 182
A W+ G L+ + +L + GK+ + + A++
Sbjct: 210 S--ADWWSYGVLMFEMLTGSLPFQGKDRKETMTLILKAKL 247
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
0.319 0.141 0.428
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,008,881
Number of Sequences: 62578
Number of extensions: 404089
Number of successful extensions: 721
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 656
Number of HSP's gapped (non-prelim): 24
length of query: 283
length of database: 14,973,337
effective HSP length: 98
effective length of query: 185
effective length of database: 8,840,693
effective search space: 1635528205
effective search space used: 1635528205
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)