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= 025246
(255 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 374 bits (960), Expect = e-104, Method: Compositional matrix adjust.
Identities = 190/251 (75%), Positives = 204/251 (81%), Gaps = 16/251 (6%)
Query: 19 QKSRSVAGATKASFXXXXXXXXXXXXATAGTRSVSVSAAAADPNRPLWFPGSTPPEWLDG 78
QK+ S +G +KA F + + RS S A+P+RPLWFPGSTPP WLDG
Sbjct: 21 QKNGSPSGTSKA-FLGRKLKVNSSTASPSRVRSTSTVCTVAEPDRPLWFPGSTPPPWLDG 79
Query: 79 SLPGDFGFDPLGL-------------EIVHCRWAMLGAAGIFIPELLTKLGILNTPSWYT 125
SLPGDFGFDPLGL E+VH RWAMLGAAGIFIPE LTKLGILNTPSWYT
Sbjct: 80 SLPGDFGFDPLGLGSDPESLRWNVQAELVHSRWAMLGAAGIFIPEFLTKLGILNTPSWYT 139
Query: 126 AGELEYFTDTTTLFIVEMIFIGWAEGRRWADIIKPGCVNTDPIFPNNKLTGTDVGYPGGL 185
AGE EYFTDTTTLFIVE++FIGWAEGRRWADI+ PGCVNTDPIFPNNKLTGTDVGYPGGL
Sbjct: 140 AGEQEYFTDTTTLFIVELVFIGWAEGRRWADILNPGCVNTDPIFPNNKLTGTDVGYPGGL 199
Query: 186 WFDPLGWGSGSPEKVKELRTKEIKNGRLAMLAVMGAWFQHIYTGTGPIDNLI-AHLADPG 244
WFDPLGWGS SP+K+KELRTKEIKNGRLAMLAVMGAWFQHIYTGTGPIDNL AHLADP
Sbjct: 200 WFDPLGWGSASPQKLKELRTKEIKNGRLAMLAVMGAWFQHIYTGTGPIDNLFAAHLADP- 258
Query: 245 HATVFAAFTPK 255
HAT+FAAFTPK
Sbjct: 259 HATIFAAFTPK 269
>pdb|2O01|2 Chain 2, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 186
Score = 330 bits (846), Expect = 4e-91, Method: Compositional matrix adjust.
Identities = 161/186 (86%), Positives = 167/186 (89%), Gaps = 13/186 (6%)
Query: 73 PEWLDGSLPGDFGFDPLGL-------------EIVHCRWAMLGAAGIFIPELLTKLGILN 119
PEWLDGSLPGDFGFDPLGL E+VH RWAMLGAAGIFIPE LTKLGILN
Sbjct: 1 PEWLDGSLPGDFGFDPLGLSSDPESLRWNVQAELVHSRWAMLGAAGIFIPEFLTKLGILN 60
Query: 120 TPSWYTAGELEYFTDTTTLFIVEMIFIGWAEGRRWADIIKPGCVNTDPIFPNNKLTGTDV 179
TPSWYTAGE EYFTDTTTLFIVE++FIGWAEGRRWADI+ PGCVNTDPIFPNNKLTGTDV
Sbjct: 61 TPSWYTAGEQEYFTDTTTLFIVELVFIGWAEGRRWADILNPGCVNTDPIFPNNKLTGTDV 120
Query: 180 GYPGGLWFDPLGWGSGSPEKVKELRTKEIKNGRLAMLAVMGAWFQHIYTGTGPIDNLIAH 239
GYPGGLWFDPLGWGS SP+K+KELRTKEIKNGRLAMLAVMGAWFQHIYTGTGPIDNL AH
Sbjct: 121 GYPGGLWFDPLGWGSASPQKLKELRTKEIKNGRLAMLAVMGAWFQHIYTGTGPIDNLFAH 180
Query: 240 LADPGH 245
LADPGH
Sbjct: 181 LADPGH 186
>pdb|3LW5|2 Chain 2, Improved Model Of Plant Photosystem I
Length = 176
Score = 320 bits (819), Expect = 6e-88, Method: Compositional matrix adjust.
Identities = 151/164 (92%), Positives = 158/164 (96%)
Query: 92 EIVHCRWAMLGAAGIFIPELLTKLGILNTPSWYTAGELEYFTDTTTLFIVEMIFIGWAEG 151
E+VH RWAMLGAAGIFIPE LTKLGILNTPSWYTAGE EYFTDTTTLFIVE++FIGWAEG
Sbjct: 13 ELVHSRWAMLGAAGIFIPEFLTKLGILNTPSWYTAGEQEYFTDTTTLFIVELVFIGWAEG 72
Query: 152 RRWADIIKPGCVNTDPIFPNNKLTGTDVGYPGGLWFDPLGWGSGSPEKVKELRTKEIKNG 211
RRWADI+ PGCVNTDPIFPNNKLTGTDVGYPGGLWFDPLGWGS SP+K+KELRTKEIKNG
Sbjct: 73 RRWADILNPGCVNTDPIFPNNKLTGTDVGYPGGLWFDPLGWGSASPQKLKELRTKEIKNG 132
Query: 212 RLAMLAVMGAWFQHIYTGTGPIDNLIAHLADPGHATVFAAFTPK 255
RLAMLAVMGAWFQHIYTGTGPIDNL AHLADPGHAT+FAAFTPK
Sbjct: 133 RLAMLAVMGAWFQHIYTGTGPIDNLFAHLADPGHATIFAAFTPK 176
>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 = 187 bits (474), Expect = 7e-48, Method: Compositional matrix adjust.
Identities = 101/215 (46%), Positives = 129/215 (60%), Gaps = 23/215 (10%)
Query: 50 RSVSVSAAAA---DPNRPLWFPGSTPPEWLDGSLPGDFGFDPLGL-------------EI 93
R V S +A+ + + W PG P +L GSLPGD GFDPLGL E+
Sbjct: 37 RPVGCSPSASFKVEAKKGEWLPGLASPGYLTGSLPGDNGFDPLGLAEDPENLRWFVQAEL 96
Query: 94 VHCRWAMLGAAGIFIPELLTKLGILNTPSWYTAGELEYFTDTTTLFIVEMIFIGWAEGRR 153
V+ RWAMLG AG+ +PE+ T +GI+N P WY AG+ EYF ++TLF++E I + E RR
Sbjct: 97 VNGRWAMLGVAGMLLPEVFTSIGIINVPKWYAAGKEEYFASSSTLFVIEFILSHYVEIRR 156
Query: 154 WADIIKPGCVNTDPIFPNNKLTGTDVGYPGGLWFDPLGWGSGSPEKVKELRTKEIKNGRL 213
W DI PG VN DPIF L +VGYPGG+ F+PL + E + KEI NGRL
Sbjct: 157 WQDIKNPGSVNQDPIFKQYSLPAGEVGYPGGI-FNPLNFAP-----TLEAKEKEIANGRL 210
Query: 214 AMLAVMGAWFQHIYTGTGPIDNLIAHLADPGHATV 248
MLA +G QH TG GP DNL+ H++DP H T+
Sbjct: 211 -MLAFLGFIIQHNVTGKGPFDNLLQHISDPWHNTI 244
>pdb|2O01|4 Chain 4, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 165
Score = 166 bits (419), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 80/157 (50%), Positives = 103/157 (65%), Gaps = 6/157 (3%)
Query: 92 EIVHCRWAMLGAAGIFIPELLTKLGILNTPSWYTAGELEYFTDTTTLFIVEMIFIGWAEG 151
E+V+ RWAMLG AG+ +PE+ T +GI+N P WY AG+ EYF ++TLF++E I + E
Sbjct: 11 ELVNGRWAMLGVAGMLLPEVFTSIGIINVPKWYAAGKEEYFASSSTLFVIEFILSHYVEI 70
Query: 152 RRWADIIKPGCVNTDPIFPNNKLTGTDVGYPGGLWFDPLGWGSGSPEKVKELRTKEIKNG 211
RRW DI PG VN DPIF L +VGYPGG+ F+PL + E + KEI NG
Sbjct: 71 RRWQDIKNPGSVNQDPIFKQYSLPAGEVGYPGGI-FNPLNFAP-----TLEAKEKEIANG 124
Query: 212 RLAMLAVMGAWFQHIYTGTGPIDNLIAHLADPGHATV 248
RLAMLA +G QH TG GP DNL+ H++DP H T+
Sbjct: 125 RLAMLAFLGFIIQHNVTGKGPFDNLLQHISDPWHNTI 161
Score = 29.6 bits (65), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 20/38 (52%)
Query: 197 PEKVKELRTKEIKNGRLAMLAVMGAWFQHIYTGTGPID 234
PE ++ E+ NGR AML V G ++T G I+
Sbjct: 1 PENLRWFVQAELVNGRWAMLGVAGMLLPEVFTSIGIIN 38
>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 = 161 bits (408), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 96/236 (40%), Positives = 130/236 (55%), Gaps = 35/236 (14%)
Query: 51 SVSVSAAAADP-----NRPLWFPGSTPPEWLDGSLPGDFGFDPLGL-------------- 91
S V AAA P +RPLWF +LDGSLPGD+GFDPLGL
Sbjct: 39 SFLVKAAATPPVKQGSDRPLWFASKQSLSYLDGSLPGDYGFDPLGLSDPEGTGGFIEPKW 98
Query: 92 ----EIVHCRWAMLGAAGIFIPELLTKLGILNTPS---WYT------AGELEYFTDTTTL 138
EI++ R+AMLGA G PE+L K G++ + W+ AG Y+ D+ TL
Sbjct: 99 LAYGEIINGRYAMLGAVGAIAPEILGKAGLIPQETALPWFRTGFIPPAGTYNYWADSYTL 158
Query: 139 FIVEMIFIGWAEGRRWADIIKPGCVNTDPIFPNNKLTGT--DVGYPGGLWFDPLGWGSGS 196
F+ EM +G+AE RR+ D KPG + K G + YPGG +F+PLG+G
Sbjct: 159 FVFEMALMGFAEHRRFQDWAKPGSMGKQYFLGLEKGLGGSGEPAYPGGPFFNPLGFGK-D 217
Query: 197 PEKVKELRTKEIKNGRLAMLAVMGAWFQHIYTGTGPIDNLIAHLADPGHATVFAAF 252
+ +K+L+ KE+KNGRLAMLA++G + Q + TG GP NL+ HL DP H + +
Sbjct: 218 EKSLKDLKLKEVKNGRLAMLAILGYFVQALVTGVGPYQNLLDHLTDPVHNNILTSL 273
>pdb|3LW5|4 Chain 4, Improved Model Of Plant Photosystem I
Length = 166
Score = 159 bits (403), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 79/157 (50%), Positives = 102/157 (64%), Gaps = 7/157 (4%)
Query: 92 EIVHCRWAMLGAAGIFIPELLTKLGILNTPSWYTAGELEYFTDTTTLFIVEMIFIGWAEG 151
E+V+ RWAMLG AG+ +PE+ T +GI+N P WY AG+ EYF ++TLF++E I + E
Sbjct: 15 ELVNGRWAMLGVAGMLLPEVFTSIGIINVPKWYAAGKEEYFASSSTLFVIEFILSHYVEI 74
Query: 152 RRWADIIKPGCVNTDPIFPNNKLTGTDVGYPGGLWFDPLGWGSGSPEKVKELRTKEIKNG 211
RRW DI PG VN DPIF L +VGYPGG+ F+PL + E + KEI NG
Sbjct: 75 RRWQDIKNPGSVNQDPIFKQYSLPAGEVGYPGGI-FNPLNFAP-----TLEAKEKEIANG 128
Query: 212 RLAMLAVMGAWFQHIYTGTGPIDNLIAHLADPGHATV 248
RL MLA +G QH TG GP DNL+ H++DP H T+
Sbjct: 129 RL-MLAFLGFIIQHNVTGKGPFDNLLQHISDPWHNTI 164
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 20/39 (51%)
Query: 196 SPEKVKELRTKEIKNGRLAMLAVMGAWFQHIYTGTGPID 234
PE ++ E+ NGR AML V G ++T G I+
Sbjct: 4 DPENLRWFVQAELVNGRWAMLGVAGMLLPEVFTSIGIIN 42
>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 = 129 bits (323), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 82/205 (40%), Positives = 105/205 (51%), Gaps = 41/205 (20%)
Query: 66 WFPGSTPPEWLDGSLPGDFGFDPLGL-------------EIVHCRWAMLGAAGIFIPELL 112
W PG P +LDGS PGDFGFDPLGL E++HCRWAML GI +PE L
Sbjct: 48 WMPGEPRPAYLDGSAPGDFGFDPLGLGEVPANLERYKESELIHCRWAMLAVPGILVPEAL 107
Query: 113 TKLGILNTPSWYT--AGELEYFTDTT------TLFIVEMIFIGWAEGRRWADIIKPGCVN 164
+ W G+ Y + T+ +E + I + E +R +
Sbjct: 108 GYGNWVKAQEWAALPGGQATYLGNPVPWGTLPTILAIEFLAIAFVEHQR--------SME 159
Query: 165 TDPIFPNNKLTGTDVGYPGGLWFDPLGWGSGSPEKVKELRTKEIKNGRLAMLAVMGAWFQ 224
DP YPGG FDPLG+ S P+K++EL+ KEIKNGRLA+LA +G Q
Sbjct: 160 KDP---------EKKKYPGGA-FDPLGY-SKDPKKLEELKVKEIKNGRLALLAFVGFCVQ 208
Query: 225 H-IYTGTGPIDNLIAHLADPGHATV 248
Y GTGP++NL HLADP H +
Sbjct: 209 QSAYPGTGPLENLATHLADPWHNNI 233
>pdb|2O01|1 Chain 1, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 187
Score = 125 bits (313), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 81/204 (39%), Positives = 104/204 (50%), Gaps = 41/204 (20%)
Query: 67 FPGSTPPEWLDGSLPGDFGFDPLGL-------------EIVHCRWAMLGAAGIFIPELLT 113
PG P +LDGS PGDFGFDPLGL E++HCRWAML GI +PE L
Sbjct: 1 MPGEPRPAYLDGSAPGDFGFDPLGLGEVPANLERYKESELIHCRWAMLAVPGILVPEALG 60
Query: 114 KLGILNTPSWYT--AGELEYFTDTT------TLFIVEMIFIGWAEGRRWADIIKPGCVNT 165
+ W G+ Y + T+ +E + I + E +R +
Sbjct: 61 YGNWVKAQEWAALPGGQATYLGNPVPWGTLPTILAIEFLAIAFVEHQR--------SMEK 112
Query: 166 DPIFPNNKLTGTDVGYPGGLWFDPLGWGSGSPEKVKELRTKEIKNGRLAMLAVMGAWFQH 225
DP YPGG FDPLG+ S P+K++EL+ KEIKNGRLA+LA +G Q
Sbjct: 113 DP---------EKKKYPGGA-FDPLGY-SKDPKKLEELKVKEIKNGRLALLAFVGFCVQQ 161
Query: 226 -IYTGTGPIDNLIAHLADPGHATV 248
Y GTGP++NL HLADP H +
Sbjct: 162 SAYPGTGPLENLATHLADPWHNNI 185
>pdb|2O01|3 Chain 3, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 165
Score = 119 bits (298), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 70/161 (43%), Positives = 98/161 (60%), Gaps = 12/161 (7%)
Query: 92 EIVHCRWAMLGAAGIFIPELLTKLGILNTPS---WYT------AGELEYFTDTTTLFIVE 142
EI++ R+AMLGAAG PE+L K G++ + W+ AG Y+ D TLF++E
Sbjct: 6 EIINGRFAMLGAAGAIAPEILGKAGLIPAETALPWFQTGVIPPAGTYTYWADNYTLFVLE 65
Query: 143 MIFIGWAEGRRWADIIKPGCVNTDPIFPNNK-LTGT-DVGYPGGLWFDPLGWGSGSPEKV 200
M +G+AE RR D PG + K L G+ + YPGG +F+PLG+G + +
Sbjct: 66 MALMGFAEHRRLQDWYNPGSMGKQYFLGLEKGLAGSGNPAYPGGPFFNPLGFGK-DEKSL 124
Query: 201 KELRTKEIKNGRLAMLAVMGAWFQHIYTGTGPIDNLIAHLA 241
KEL+ KE+KNGRLAMLA++G + Q + TG GP NL+ HLA
Sbjct: 125 KELKLKEVKNGRLAMLAILGYFIQGLVTGVGPYQNLLDHLA 165
>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 = 114 bits (285), Expect = 6e-26, Method: Compositional matrix adjust.
Identities = 86/231 (37%), Positives = 115/231 (49%), Gaps = 50/231 (21%)
Query: 46 TAGT-RSVSVSAAAADPNRPLW---FPGSTPPEWLDGSLPGDFGFDPLGL---------- 91
TAG ++V S+ P+R + F G +P +L G PGD+G+D GL
Sbjct: 3 TAGKPKTVQSSSPWYGPDRVKYLGPFSGESP-SYLTGEFPGDYGWDTAGLSADPETFAKN 61
Query: 92 ---EIVHCRWAMLGAAGIFIPELLTKLGI-LNTPSWYTAGE-------LEYFTDTT---- 136
E++HCRWAMLGA G PELL + G+ W+ AG L+Y + +
Sbjct: 62 RELEVIHCRWAMLGALGCVFPELLARNGVKFGEAVWFKAGSQIFSEGGLDYLGNPSLVHA 121
Query: 137 ----TLFIVEMIFIGWAEGRRWADIIKPGCVNTDPIFPNNKLTGTDVGYPGGLWFDPLGW 192
++ ++I +G EG R A P DP+ YPGG FDPLG
Sbjct: 122 QSILAIWACQVILMGAVEGYRIAG--GPLGEVVDPL------------YPGGS-FDPLGL 166
Query: 193 GSGSPEKVKELRTKEIKNGRLAMLAVMGAWFQHIYTGTGPIDNLIAHLADP 243
PE EL+ KEIKNGRLAM ++ G + Q I TG GP++NL HLADP
Sbjct: 167 AD-DPEAFAELKVKEIKNGRLAMFSMFGFFVQAIVTGKGPLENLADHLADP 216
>pdb|3LW5|1 Chain 1, Improved Model Of Plant Photosystem I
Length = 170
Score = 112 bits (281), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 75/189 (39%), Positives = 96/189 (50%), Gaps = 41/189 (21%)
Query: 79 SLPGDFGFDPLGL-------------EIVHCRWAMLGAAGIFIPELLTKLGILNTPSWYT 125
S PGDFGFDPLGL E++HCRWAML GI +PE L + W
Sbjct: 1 SAPGDFGFDPLGLGEVPANLERYKESELIHCRWAMLAVPGILVPEALGYGNWVKAQEWAA 60
Query: 126 --AGELEYFTDTT------TLFIVEMIFIGWAEGRRWADIIKPGCVNTDPIFPNNKLTGT 177
G+ Y + T+ +E + I + E +R + DP
Sbjct: 61 LPGGQATYLGNPVPWGTLPTILAIEFLAIAFVEHQR--------SMEKDP---------E 103
Query: 178 DVGYPGGLWFDPLGWGSGSPEKVKELRTKEIKNGRLAMLAVMGAWFQH-IYTGTGPIDNL 236
YPGG FDPLG+ S P+K++EL+ KEIKNGRLA+LA +G Q Y GTGP++NL
Sbjct: 104 KKKYPGGA-FDPLGY-SKDPKKLEELKVKEIKNGRLALLAFVGFCVQQSAYPGTGPLENL 161
Query: 237 IAHLADPGH 245
HLADP H
Sbjct: 162 ATHLADPWH 170
>pdb|3LW5|3 Chain 3, Improved Model Of Plant Photosystem I
Length = 172
Score = 112 bits (280), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 64/155 (41%), Positives = 92/155 (59%), Gaps = 12/155 (7%)
Query: 92 EIVHCRWAMLGAAGIFIPELLTKLGIL---NTPSWYT------AGELEYFTDTTTLFIVE 142
E+++ R+AMLGA G PE L K+G++ +W+ AG Y+ D TLF++E
Sbjct: 19 EVINGRFAMLGAVGAIAPEYLGKVGLIPQETALAWFQTGVIPPAGTYNYWADNYTLFVLE 78
Query: 143 MIFIGWAEGRRWADIIKPGCVNTDPIFPNNKLTGT--DVGYPGGLWFDPLGWGSGSPEKV 200
M +G+AE RR+ D KPG + K G + YPGG +F+PLG+G + +
Sbjct: 79 MALMGFAEHRRFQDWAKPGSMGKQYFLGLEKGFGGSGNPAYPGGPFFNPLGFGK-DEKSL 137
Query: 201 KELRTKEIKNGRLAMLAVMGAWFQHIYTGTGPIDN 235
KEL+ KE+KNGRLAMLA++G + Q + TG GP N
Sbjct: 138 KELKLKEVKNGRLAMLAILGYFIQGLVTGVGPYQN 172
>pdb|1VCR|A Chain A, An Icosahedral Assembly Of Light-Harvesting Chlorophyll AB
Protein Complex From Pea Thylakoid Membranes
Length = 232
Score = 109 bits (273), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 75/200 (37%), Positives = 100/200 (50%), Gaps = 45/200 (22%)
Query: 73 PEWLDGSLPGDFGFDPLGL-------------EIVHCRWAMLGAAGIFIPELLTKLGI-L 118
P +L G PGD+G+D GL E++H RWAMLGA G PELL++ G+
Sbjct: 33 PSYLTGEFPGDYGWDTAGLSADPETFSKNRELEVIHSRWAMLGALGCVFPELLSRNGVKF 92
Query: 119 NTPSWYTAGE-------LEYFTDTT--------TLFIVEMIFIGWAEGRRWADIIKPGCV 163
W+ AG L+Y + + ++ ++I +G EG R A P
Sbjct: 93 GEAVWFKAGSQIFSEGGLDYLGNPSLVHAQSILAIWATQVILMGAVEGYRIAG--GPLGE 150
Query: 164 NTDPIFPNNKLTGTDVGYPGGLWFDPLGWGSGSPEKVKELRTKEIKNGRLAMLAVMGAWF 223
DP+ YPGG FDPLG PE EL+ KE+KNGRLAM ++ G +
Sbjct: 151 VVDPL------------YPGGS-FDPLGLAD-DPEAFAELKVKELKNGRLAMFSMFGFFV 196
Query: 224 QHIYTGTGPIDNLIAHLADP 243
Q I TG GP++NL HLADP
Sbjct: 197 QAIVTGKGPLENLADHLADP 216
>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 = 109 bits (272), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 75/200 (37%), Positives = 100/200 (50%), Gaps = 45/200 (22%)
Query: 73 PEWLDGSLPGDFGFDPLGL-------------EIVHCRWAMLGAAGIFIPELLTKLGI-L 118
P +L G PGD+G+D GL E++H RWAMLGA G PELL++ G+
Sbjct: 33 PSYLTGEFPGDYGWDTAGLSADPETFSKNRELEVIHSRWAMLGALGSVFPELLSRNGVKF 92
Query: 119 NTPSWYTAGE-------LEYFTDTT--------TLFIVEMIFIGWAEGRRWADIIKPGCV 163
W+ AG L+Y + + ++ ++I +G EG R A P
Sbjct: 93 GEAVWFKAGSQIFSEGGLDYLGNPSLVHAQSILAIWATQVILMGAVEGYRIAG--GPLGE 150
Query: 164 NTDPIFPNNKLTGTDVGYPGGLWFDPLGWGSGSPEKVKELRTKEIKNGRLAMLAVMGAWF 223
DP+ YPGG FDPLG PE EL+ KE+KNGRLAM ++ G +
Sbjct: 151 VVDPL------------YPGGS-FDPLGLAD-DPEAFAELKVKELKNGRLAMFSMFGFFV 196
Query: 224 QHIYTGTGPIDNLIAHLADP 243
Q I TG GP++NL HLADP
Sbjct: 197 QAIVTGKGPLENLADHLADP 216
>pdb|3PL9|A Chain A, Crystal Structure Of Spinach Minor Light-Harvesting
Complex Cp29 At 2.80 Angstrom Resolution
Length = 243
Score = 99.0 bits (245), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 80/258 (31%), Positives = 107/258 (41%), Gaps = 92/258 (35%)
Query: 62 NRPLWFPGSTPPEWLDGSLPGDFGFDPLGL------------------------EIVHCR 97
+RPLW+PG+ PE+LDGSL GD+GFDP GL +I+ R
Sbjct: 10 DRPLWYPGAKAPEYLDGSLVGDYGFDPFGLGKPAEYLQYDYDGLDQNLAKNLAGDIIGTR 69
Query: 98 --------------------------------WAMLGAAGIFIPELLTKLGILNTPSWYT 125
WAML G E LT + +W
Sbjct: 70 TESADVKSTSLQPYSEVFGLQRFRECELIHGRWAMLATLGALTVEGLTGI------TWQD 123
Query: 126 AGELEYFTDT-----------TTLFIVEMIFIGWAEGRRWADIIKPGCVNTDPIFPNNKL 174
AG++E + TTL +E++ IG+ E +R N +L
Sbjct: 124 AGKVELIEGSSYLGQPLPFSMTTLIWIEVLVIGYIEFQR-----------------NAEL 166
Query: 175 TGTDVGYPGGLWFDPLGWGSGSPEKVKELRTKEIKNGRLAMLAVMGAWFQHIYTGTGPID 234
YPGG FDPLG S PEK L+ EIK+ RLAM+ +G Q TG GP++
Sbjct: 167 DTEKRLYPGGT-FDPLGLAS-DPEKKPILQLAEIKHARLAMVGFLGFAVQAAVTGKGPLN 224
Query: 235 NLIAHLADPGHATVFAAF 252
N + HL+DP H T+ F
Sbjct: 225 NWVTHLSDPLHTTILDRF 242
>pdb|2VXK|A Chain A, Structural Comparison Between Aspergillus Fumigatus And
Human Gna1
pdb|2VEZ|A Chain A, Afgna1 Crystal Structure Complexed With Acetyl-Coa And
Glucose-6p Gives New Insights Into Catalysis
Length = 190
Score = 34.3 bits (77), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 40/90 (44%), Gaps = 9/90 (10%)
Query: 53 SVSAAAADPNRPLWFPGSTPPEWLDGSLPGDFGFDPLGLEIVHCRWAMLGAAGIFIPELL 112
SV A AD N PL+ P P+ L LP D+ PL CR + + + +L
Sbjct: 18 SVDAPTADENTPLFSPSLISPDVL-AVLPADYTIRPL------CR-SDYKRGYLDVLRVL 69
Query: 113 TKLGILNTPSWYTAGE-LEYFTDTTTLFIV 141
T +G +N W + E + +D L +V
Sbjct: 70 TTVGDINEEQWNSRYEWIRARSDEYYLLVV 99
>pdb|1ARO|P Chain P, T7 Rna Polymerase Complexed With T7 Lysozyme
Length = 883
Score = 30.8 bits (68), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 29/63 (46%), Gaps = 3/63 (4%)
Query: 64 PLWFPGSTPPEWLDGSLPGDF---GFDPLGLEIVHCRWAMLGAAGIFIPELLTKLGILNT 120
P++ P PP+ G G + G PL L H + A++ +++PE+ + I
Sbjct: 266 PMFQPCVVPPKPWTGITGGGYWANGRRPLALVRTHSKKALMRYEDVYMPEVYKAINIAQN 325
Query: 121 PSW 123
+W
Sbjct: 326 TAW 328
>pdb|2PI4|A Chain A, T7rnap Complexed With A Phi10 Protein And Initiating Gtps.
pdb|2PI5|A Chain A, T7 Rna Polymerase Complexed With A Phi10 Promoter
Length = 878
Score = 30.4 bits (67), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 29/63 (46%), Gaps = 3/63 (4%)
Query: 64 PLWFPGSTPPEWLDGSLPGDF---GFDPLGLEIVHCRWAMLGAAGIFIPELLTKLGILNT 120
P++ P PP+ G G + G PL L H + A++ +++PE+ + I
Sbjct: 261 PMFQPCVVPPKPWTGITGGGYWANGRRPLALVRTHSKKALMRYEDVYMPEVYKAINIAQN 320
Query: 121 PSW 123
+W
Sbjct: 321 TAW 323
>pdb|4RNP|A Chain A, Bacteriophage T7 Rna Polymerase, High Salt Crystal Form,
Low Temperature Data, Alpha-Carbons Only
pdb|4RNP|B Chain B, Bacteriophage T7 Rna Polymerase, High Salt Crystal Form,
Low Temperature Data, Alpha-Carbons Only
pdb|4RNP|C Chain C, Bacteriophage T7 Rna Polymerase, High Salt Crystal Form,
Low Temperature Data, Alpha-Carbons Only
pdb|1CEZ|A Chain A, Crystal Structure Of A T7 Rna Polymerase-T7 Promoter
Complex
pdb|1QLN|A Chain A, Structure Of A Transcribing T7 Rna Polymerase Initiation
Complex
pdb|1H38|A Chain A, Structure Of A T7 Rna Polymerase Elongation Complex At
2.9a Resolution
pdb|1H38|B Chain B, Structure Of A T7 Rna Polymerase Elongation Complex At
2.9a Resolution
pdb|1H38|C Chain C, Structure Of A T7 Rna Polymerase Elongation Complex At
2.9a Resolution
pdb|1H38|D Chain D, Structure Of A T7 Rna Polymerase Elongation Complex At
2.9a Resolution
pdb|1MSW|D Chain D, Structural Basis For The Transition From Initiation To
Elongation Transcription In T7 Rna Polymerase
pdb|1S0V|A Chain A, Structural Basis For Substrate Selection By T7 Rna
Polymerase
pdb|1S0V|B Chain B, Structural Basis For Substrate Selection By T7 Rna
Polymerase
pdb|1S0V|C Chain C, Structural Basis For Substrate Selection By T7 Rna
Polymerase
pdb|1S0V|D Chain D, Structural Basis For Substrate Selection By T7 Rna
Polymerase
pdb|1S76|D Chain D, T7 Rna Polymerase Alpha Beta Methylene Atp Elongation
Complex
pdb|1S77|D Chain D, T7 Rnap Product Pyrophosphate Elongation Complex
Length = 883
Score = 30.4 bits (67), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 29/63 (46%), Gaps = 3/63 (4%)
Query: 64 PLWFPGSTPPEWLDGSLPGDF---GFDPLGLEIVHCRWAMLGAAGIFIPELLTKLGILNT 120
P++ P PP+ G G + G PL L H + A++ +++PE+ + I
Sbjct: 266 PMFQPCVVPPKPWTGITGGGYWANGRRPLALVRTHSKKALMRYEDVYMPEVYKAINIAQN 325
Query: 121 PSW 123
+W
Sbjct: 326 TAW 328
>pdb|1V5E|A Chain A, Crystal Structure Of Pyruvate Oxidase Containing Fad, From
Aerococcus Viridans
pdb|2DJI|A Chain A, Crystal Structure Of Pyruvate Oxidase From Aerococcus
Viridans Containing Fad
Length = 590
Score = 28.5 bits (62), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 19/33 (57%)
Query: 95 HCRWAMLGAAGIFIPELLTKLGILNTPSWYTAG 127
H A+LG A + I E+L K+ + +W+TA
Sbjct: 310 HADVAILGDAALAIDEILNKVDAVEESAWWTAN 342
>pdb|1V5F|A Chain A, Crystal Structure Of Pyruvate Oxidase Complexed With Fad
And Tpp, From Aerococcus Viridans
pdb|1V5G|A Chain A, Crystal Structure Of The Reaction Intermediate Between
Pyruvate Oxidase Containing Fad And Tpp, And Substrate
Pyruvate
Length = 589
Score = 28.5 bits (62), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 19/33 (57%)
Query: 95 HCRWAMLGAAGIFIPELLTKLGILNTPSWYTAG 127
H A+LG A + I E+L K+ + +W+TA
Sbjct: 309 HADVAILGDAALAIDEILNKVDAVEESAWWTAN 341
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.320 0.139 0.456
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,893,587
Number of Sequences: 62578
Number of extensions: 370383
Number of successful extensions: 788
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: 712
Number of HSP's gapped (non-prelim): 31
length of query: 255
length of database: 14,973,337
effective HSP length: 97
effective length of query: 158
effective length of database: 8,903,271
effective search space: 1406716818
effective search space used: 1406716818
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 50 (23.9 bits)