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= 021923
(305 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 205 bits (521), Expect = 3e-53, Method: Compositional matrix adjust.
Identities = 113/231 (48%), Positives = 144/231 (62%), Gaps = 10/231 (4%)
Query: 20 RQARNESLWYGEERPRWLGPIPYDYPSYLTGELPGDYGFDVAGLSKDPMAFQKYFNFEIL 79
+ ++ S WYG +R ++LGP + PSYLTGE PGDYG+D AGLS DP F K E++
Sbjct: 8 KTVQSSSPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVI 67
Query: 80 HARWAMLGALGALVPEVLDMVGAFHLVEPVWWRVGYSKLQGETLDYLGIPGLHLAGSQGV 139
H RWAMLGALG + PE+L G E VW++ G LDYLG P L A Q +
Sbjct: 68 HCRWAMLGALGCVFPELLARNGV-KFGEAVWFKAGSQIFSEGGLDYLGNPSLVHA--QSI 124
Query: 140 IVIAICQALLMVGPECARYCGIEALEPLGIFLPGDINYPGGALFDPLNLSKDPVAFEELK 199
+ I CQ +LM E R G PLG + D YPGG+ FDPL L+ DP AF ELK
Sbjct: 125 LAIWACQVILMGAVEGYRIAG----GPLGEVV--DPLYPGGS-FDPLGLADDPEAFAELK 177
Query: 200 VKEIKNGRLAMVAWLGFYIQAAFTGKGPVQNLLDHISDPLHNNLLSMVKSM 250
VKEIKNGRLAM + GF++QA TGKGP++NL DH++DP++NN + +
Sbjct: 178 VKEIKNGRLAMFSMFGFFVQAIVTGKGPLENLADHLADPVNNNAWNFATNF 228
>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 = 204 bits (520), Expect = 4e-53, Method: Compositional matrix adjust.
Identities = 114/237 (48%), Positives = 146/237 (61%), Gaps = 10/237 (4%)
Query: 14 KFKALARQARNESLWYGEERPRWLGPIPYDYPSYLTGELPGDYGFDVAGLSKDPMAFQKY 73
K + A + S WYG +R ++LGP + PSYLTGE PGDYG+D AGLS DP F K
Sbjct: 2 KSATTKKVASSGSPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFSKN 61
Query: 74 FNFEILHARWAMLGALGALVPEVLDMVGAFHLVEPVWWRVGYSKLQGETLDYLGIPGLHL 133
E++H+RWAMLGALG++ PE+L G E VW++ G LDYLG P L
Sbjct: 62 RELEVIHSRWAMLGALGSVFPELLSRNGV-KFGEAVWFKAGSQIFSEGGLDYLGNPSLVH 120
Query: 134 AGSQGVIVIAICQALLMVGPECARYCGIEALEPLGIFLPGDINYPGGALFDPLNLSKDPV 193
A Q ++ I Q +LM E R G PLG + D YPGG+ FDPL L+ DP
Sbjct: 121 A--QSILAIWATQVILMGAVEGYRIAG----GPLGEVV--DPLYPGGS-FDPLGLADDPE 171
Query: 194 AFEELKVKEIKNGRLAMVAWLGFYIQAAFTGKGPVQNLLDHISDPLHNNLLSMVKSM 250
AF ELKVKE+KNGRLAM + GF++QA TGKGP++NL DH++DP++NN S +
Sbjct: 172 AFAELKVKELKNGRLAMFSMFGFFVQAIVTGKGPLENLADHLADPVNNNAWSYATNF 228
>pdb|1VCR|A Chain A, An Icosahedral Assembly Of Light-Harvesting Chlorophyll AB
Protein Complex From Pea Thylakoid Membranes
Length = 232
Score = 204 bits (518), Expect = 6e-53, Method: Compositional matrix adjust.
Identities = 114/237 (48%), Positives = 145/237 (61%), Gaps = 10/237 (4%)
Query: 14 KFKALARQARNESLWYGEERPRWLGPIPYDYPSYLTGELPGDYGFDVAGLSKDPMAFQKY 73
K + A + S WYG +R ++LGP + PSYLTGE PGDYG+D AGLS DP F K
Sbjct: 2 KSATTKKVASSGSPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFSKN 61
Query: 74 FNFEILHARWAMLGALGALVPEVLDMVGAFHLVEPVWWRVGYSKLQGETLDYLGIPGLHL 133
E++H+RWAMLGALG + PE+L G E VW++ G LDYLG P L
Sbjct: 62 RELEVIHSRWAMLGALGCVFPELLSRNGV-KFGEAVWFKAGSQIFSEGGLDYLGNPSLVH 120
Query: 134 AGSQGVIVIAICQALLMVGPECARYCGIEALEPLGIFLPGDINYPGGALFDPLNLSKDPV 193
A Q ++ I Q +LM E R G PLG + D YPGG+ FDPL L+ DP
Sbjct: 121 A--QSILAIWATQVILMGAVEGYRIAG----GPLGEVV--DPLYPGGS-FDPLGLADDPE 171
Query: 194 AFEELKVKEIKNGRLAMVAWLGFYIQAAFTGKGPVQNLLDHISDPLHNNLLSMVKSM 250
AF ELKVKE+KNGRLAM + GF++QA TGKGP++NL DH++DP++NN S +
Sbjct: 172 AFAELKVKELKNGRLAMFSMFGFFVQAIVTGKGPLENLADHLADPVNNNAWSYATNF 228
>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 = 139 bits (350), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 98/258 (37%), Positives = 134/258 (51%), Gaps = 39/258 (15%)
Query: 12 SSKFKALARQARNESLWYGEERPRWLGPIPYDYPSYLTGELPGDYGFDVAGLSKDPMAFQ 71
S K L + A + G +RP W SYL G LPGDYGFD GLS DP
Sbjct: 35 SRKASFLVKAAATPPVKQGSDRPLWFAS--KQSLSYLDGSLPGDYGFDPLGLS-DPEGTG 91
Query: 72 KYFN------FEILHARWAMLGALGALVPEVLDMVGAFHLVEPV-WWRVGYSKLQGETLD 124
+ EI++ R+AMLGA+GA+ PE+L G + W+R G+ G T +
Sbjct: 92 GFIEPKWLAYGEIINGRYAMLGAVGAIAPEILGKAGLIPQETALPWFRTGFIPPAG-TYN 150
Query: 125 YLGIPGLHLAGSQGVIVIAICQALLMVGPECARY--------------CGIEALEPLGIF 170
Y A S + V + LM E R+ G+E G+
Sbjct: 151 YW-------ADSYTLFVFEMA---LMGFAEHRRFQDWAKPGSMGKQYFLGLEK----GLG 196
Query: 171 LPGDINYPGGALFDPLNLSKDPVAFEELKVKEIKNGRLAMVAWLGFYIQAAFTGKGPVQN 230
G+ YPGG F+PL KD + ++LK+KE+KNGRLAM+A LG+++QA TG GP QN
Sbjct: 197 GSGEPAYPGGPFFNPLGFGKDEKSLKDLKLKEVKNGRLAMLAILGYFVQALVTGVGPYQN 256
Query: 231 LLDHISDPLHNNLLSMVK 248
LLDH++DP+HNN+L+ +K
Sbjct: 257 LLDHLTDPVHNNILTSLK 274
>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 (324), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 86/204 (42%), Positives = 115/204 (56%), Gaps = 22/204 (10%)
Query: 45 PSYLTGELPGDYGFDVAGLSKDPMAFQKYFNFEILHARWAMLGALGALVPEVLDMVGAFH 104
P+YL G PGD+GFD GL + P ++Y E++H RWAML G LVPE L G +
Sbjct: 55 PAYLDGSAPGDFGFDPLGLGEVPANLERYKESELIHCRWAMLAVPGILVPEAL---GYGN 111
Query: 105 LVEPVWWRVGYSKLQGETLDYLGIPGLHLAGSQGVIVIAICQALLMVGPECARYCGIEAL 164
V+ W + L G YLG P + ++AI + L + E R +
Sbjct: 112 WVKAQEW----AALPGGQATYLGNP---VPWGTLPTILAI-EFLAIAFVEHQRSMEKD-- 161
Query: 165 EPLGIFLPGDINYPGGALFDPLNLSKDPVAFEELKVKEIKNGRLAMVAWLGFYI-QAAFT 223
P YPGGA FDPL SKDP EELKVKEIKNGRLA++A++GF + Q+A+
Sbjct: 162 -------PEKKKYPGGA-FDPLGYSKDPKKLEELKVKEIKNGRLALLAFVGFCVQQSAYP 213
Query: 224 GKGPVQNLLDHISDPLHNNLLSMV 247
G GP++NL H++DP HNN+ +V
Sbjct: 214 GTGPLENLATHLADPWHNNIGDIV 237
>pdb|2O01|1 Chain 1, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 187
Score = 128 bits (322), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 86/200 (43%), Positives = 112/200 (56%), Gaps = 22/200 (11%)
Query: 45 PSYLTGELPGDYGFDVAGLSKDPMAFQKYFNFEILHARWAMLGALGALVPEVLDMVGAFH 104
P+YL G PGD+GFD GL + P ++Y E++H RWAML G LVPE L G +
Sbjct: 7 PAYLDGSAPGDFGFDPLGLGEVPANLERYKESELIHCRWAMLAVPGILVPEAL---GYGN 63
Query: 105 LVEPVWWRVGYSKLQGETLDYLGIPGLHLAGSQGVIVIAICQALLMVGPECARYCGIEAL 164
V+ W + L G YLG P G+ I+ A+ V E R +
Sbjct: 64 WVKAQEW----AALPGGQATYLGNP--VPWGTLPTILAIEFLAIAFV--EHQRSMEKD-- 113
Query: 165 EPLGIFLPGDINYPGGALFDPLNLSKDPVAFEELKVKEIKNGRLAMVAWLGFYI-QAAFT 223
P YPGGA FDPL SKDP EELKVKEIKNGRLA++A++GF + Q+A+
Sbjct: 114 -------PEKKKYPGGA-FDPLGYSKDPKKLEELKVKEIKNGRLALLAFVGFCVQQSAYP 165
Query: 224 GKGPVQNLLDHISDPLHNNL 243
G GP++NL H++DP HNN+
Sbjct: 166 GTGPLENLATHLADPWHNNI 185
>pdb|2O01|2 Chain 2, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 186
Score = 128 bits (322), Expect = 4e-30, Method: Compositional matrix adjust.
Identities = 75/197 (38%), Positives = 104/197 (52%), Gaps = 12/197 (6%)
Query: 45 PSYLTGELPGDYGFDVAGLSKDPMAFQKYFNFEILHARWAMLGALGALVPEVLDMVGAFH 104
P +L G LPGD+GFD GLS DP + + E++H+RWAMLGA G +PE L +G
Sbjct: 1 PEWLDGSLPGDFGFDPLGLSSDPESLRWNVQAELVHSRWAMLGAAGIFIPEFLTKLGI-- 58
Query: 105 LVEPVWWRVGYSKLQGETLDYLGIPGLHLAGSQGVIVIAICQALLMVGPECARYCGIEAL 164
L P W+ G + +T + + + ++G I P C + +
Sbjct: 59 LNTPSWYTAGEQEYFTDTTTLFIVELVFIGWAEGRRWADILN------PGCVN---TDPI 109
Query: 165 EPLGIFLPGDINYPGGALFDPLNL-SKDPVAFEELKVKEIKNGRLAMVAWLGFYIQAAFT 223
P D+ YPGG FDPL S P +EL+ KEIKNGRLAM+A +G + Q +T
Sbjct: 110 FPNNKLTGTDVGYPGGLWFDPLGWGSASPQKLKELRTKEIKNGRLAMLAVMGAWFQHIYT 169
Query: 224 GKGPVQNLLDHISDPLH 240
G GP+ NL H++DP H
Sbjct: 170 GTGPIDNLFAHLADPGH 186
>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 = 124 bits (310), Expect = 8e-29, Method: Compositional matrix adjust.
Identities = 78/210 (37%), Positives = 109/210 (51%), Gaps = 17/210 (8%)
Query: 32 ERPRWL-GPIPYDYPSYLTGELPGDYGFDVAGLSKDPMAFQKYFNFEILHARWAMLGALG 90
+RP W G P P +L G LPGD+GFD GL DP + + E++H+RWAMLGA G
Sbjct: 63 DRPLWFPGSTP---PPWLDGSLPGDFGFDPLGLGSDPESLRWNVQAELVHSRWAMLGAAG 119
Query: 91 ALVPEVLDMVGAFHLVEPVWWRVGYSKLQGETLDYLGIPGLHLAGSQGVIVIAICQALLM 150
+PE L +G L P W+ G + +T + + + ++G I
Sbjct: 120 IFIPEFLTKLGI--LNTPSWYTAGEQEYFTDTTTLFIVELVFIGWAEGRRWADI------ 171
Query: 151 VGPECARYCGIEALEPLGIFLPGDINYPGGALFDPLNL-SKDPVAFEELKVKEIKNGRLA 209
+ P C + + P D+ YPGG FDPL S P +EL+ KEIKNGRLA
Sbjct: 172 LNPGCVN---TDPIFPNNKLTGTDVGYPGGLWFDPLGWGSASPQKLKELRTKEIKNGRLA 228
Query: 210 MVAWLGFYIQAAFTGKGPVQNLL-DHISDP 238
M+A +G + Q +TG GP+ NL H++DP
Sbjct: 229 MLAVMGAWFQHIYTGTGPIDNLFAAHLADP 258
>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 = 121 bits (303), Expect = 5e-28, Method: Compositional matrix adjust.
Identities = 83/211 (39%), Positives = 114/211 (54%), Gaps = 33/211 (15%)
Query: 45 PSYLTGELPGDYGFDVAGLSKDPMAFQKYFNFEILHARWAMLGALGALVPEVLDMVGAFH 104
P YLTG LPGD GFD GL++DP + + E+++ RWAMLG G L+PEV +G +
Sbjct: 63 PGYLTGSLPGDNGFDPLGLAEDPENLRWFVQAELVNGRWAMLGVAGMLLPEVFTSIGIIN 122
Query: 105 LVEPVWWRVGYSKLQGETLDYLGIPGLHLAGSQGVIVIAICQALLMVGPECARYCGIE-- 162
+ P W+ G + + A S + VI + + E R+ I+
Sbjct: 123 V--PKWYAAGKEE--------------YFASSSTLFVIEFILSHYV---EIRRWQDIKNP 163
Query: 163 -ALEPLGIF----LP-GDINYPGGALFDPLNLSKDPVAFEELKVKEIKNGRLAMVAWLGF 216
++ IF LP G++ YPGG +F+PLN + E K KEI NGRL M+A+LGF
Sbjct: 164 GSVNQDPIFKQYSLPAGEVGYPGG-IFNPLNFAPT----LEAKEKEIANGRL-MLAFLGF 217
Query: 217 YIQAAFTGKGPVQNLLDHISDPLHNNLLSMV 247
IQ TGKGP NLL HISDP HN ++ +
Sbjct: 218 IIQHNVTGKGPFDNLLQHISDPWHNTIVQTL 248
>pdb|3LW5|1 Chain 1, Improved Model Of Plant Photosystem I
Length = 170
Score = 114 bits (286), Expect = 5e-26, Method: Compositional matrix adjust.
Identities = 79/189 (41%), Positives = 105/189 (55%), Gaps = 22/189 (11%)
Query: 53 PGDYGFDVAGLSKDPMAFQKYFNFEILHARWAMLGALGALVPEVLDMVGAFHLVEPVWWR 112
PGD+GFD GL + P ++Y E++H RWAML G LVPE L G + V+ W
Sbjct: 3 PGDFGFDPLGLGEVPANLERYKESELIHCRWAMLAVPGILVPEAL---GYGNWVKAQEW- 58
Query: 113 VGYSKLQGETLDYLGIPGLHLAGSQGVIVIAICQALLMVGPECARYCGIEALEPLGIFLP 172
+ L G YLG P + ++AI + L + E R + P
Sbjct: 59 ---AALPGGQATYLGNP---VPWGTLPTILAI-EFLAIAFVEHQRSMEKD---------P 102
Query: 173 GDINYPGGALFDPLNLSKDPVAFEELKVKEIKNGRLAMVAWLGFYI-QAAFTGKGPVQNL 231
YPGGA FDPL SKDP EELKVKEIKNGRLA++A++GF + Q+A+ G GP++NL
Sbjct: 103 EKKKYPGGA-FDPLGYSKDPKKLEELKVKEIKNGRLALLAFVGFCVQQSAYPGTGPLENL 161
Query: 232 LDHISDPLH 240
H++DP H
Sbjct: 162 ATHLADPWH 170
>pdb|3LW5|2 Chain 2, Improved Model Of Plant Photosystem I
Length = 176
Score = 103 bits (257), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 62/182 (34%), Positives = 92/182 (50%), Gaps = 12/182 (6%)
Query: 65 KDPMAFQKYFNFEILHARWAMLGALGALVPEVLDMVGAFHLVEPVWWRVGYSKLQGETLD 124
DP + + E++H+RWAMLGA G +PE L +G L P W+ G + +T
Sbjct: 1 SDPESLRWNVQAELVHSRWAMLGAAGIFIPEFLTKLGI--LNTPSWYTAGEQEYFTDTTT 58
Query: 125 YLGIPGLHLAGSQGVIVIAICQALLMVGPECARYCGIEALEPLGIFLPGDINYPGGALFD 184
+ + + ++G I + P C + + P D+ YPGG FD
Sbjct: 59 LFIVELVFIGWAEGRRWADI------LNPGCVN---TDPIFPNNKLTGTDVGYPGGLWFD 109
Query: 185 PLNL-SKDPVAFEELKVKEIKNGRLAMVAWLGFYIQAAFTGKGPVQNLLDHISDPLHNNL 243
PL S P +EL+ KEIKNGRLAM+A +G + Q +TG GP+ NL H++DP H +
Sbjct: 110 PLGWGSASPQKLKELRTKEIKNGRLAMLAVMGAWFQHIYTGTGPIDNLFAHLADPGHATI 169
Query: 244 LS 245
+
Sbjct: 170 FA 171
>pdb|3PL9|A Chain A, Crystal Structure Of Spinach Minor Light-Harvesting
Complex Cp29 At 2.80 Angstrom Resolution
Length = 243
Score = 100 bits (249), Expect = 9e-22, Method: Compositional matrix adjust.
Identities = 84/260 (32%), Positives = 111/260 (42%), Gaps = 69/260 (26%)
Query: 29 YGEERPRWLGPIPYDYPSYLTGELPGDYGFDVAGLSK----------------------- 65
+ +RP W P YL G L GDYGFD GL K
Sbjct: 7 FSTDRPLWYPGA--KAPEYLDGSLVGDYGFDPFGLGKPAEYLQYDYDGLDQNLAKNLAGD 64
Query: 66 --------------------DPMAFQKYFNFEILHARWAMLGALGALVPEVLDMVGAFHL 105
+ Q++ E++H RWAML LGAL E L +
Sbjct: 65 IIGTRTESADVKSTSLQPYSEVFGLQRFRECELIHGRWAMLATLGALTVEGLTGI----- 119
Query: 106 VEPVWWRVGYSKLQGETLDYLGIPGLHLAGSQGVIVIAICQALLMVGPECARYCGIEALE 165
W G +L E YLG P L S ++ + L++ E R ++ +
Sbjct: 120 ---TWQDAGKVELI-EGSSYLGQP---LPFSMTTLIW--IEVLVIGYIEFQRNAELDTEK 170
Query: 166 PLGIFLPGDINYPGGALFDPLNLSKDPVAFEELKVKEIKNGRLAMVAWLGFYIQAAFTGK 225
L YPGG FDPL L+ DP L++ EIK+ RLAMV +LGF +QAA TGK
Sbjct: 171 RL---------YPGGT-FDPLGLASDPEKKPILQLAEIKHARLAMVGFLGFAVQAAVTGK 220
Query: 226 GPVQNLLDHISDPLHNNLLS 245
GP+ N + H+SDPLH +L
Sbjct: 221 GPLNNWVTHLSDPLHTTILD 240
>pdb|2O01|4 Chain 4, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 165
Score = 97.1 bits (240), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 69/189 (36%), Positives = 98/189 (51%), Gaps = 32/189 (16%)
Query: 67 PMAFQKYFNFEILHARWAMLGALGALVPEVLDMVGAFHLVEPVWWRVGYSKLQGETLDYL 126
P + + E+++ RWAMLG G L+PEV +G ++ P W+ G +
Sbjct: 1 PENLRWFVQAELVNGRWAMLGVAGMLLPEVFTSIGIINV--PKWYAAGKEE--------- 49
Query: 127 GIPGLHLAGSQGVIVIAICQALLMVGPECARYCGIE---ALEPLGIF----LP-GDINYP 178
+ A S + VI + + E R+ I+ ++ IF LP G++ YP
Sbjct: 50 -----YFASSSTLFVIEFILSHYV---EIRRWQDIKNPGSVNQDPIFKQYSLPAGEVGYP 101
Query: 179 GGALFDPLNLSKDPVAFEELKVKEIKNGRLAMVAWLGFYIQAAFTGKGPVQNLLDHISDP 238
GG +F+PLN + E K KEI NGRLAM+A+LGF IQ TGKGP NLL HISDP
Sbjct: 102 GG-IFNPLNFAPT----LEAKEKEIANGRLAMLAFLGFIIQHNVTGKGPFDNLLQHISDP 156
Query: 239 LHNNLLSMV 247
HN ++ +
Sbjct: 157 WHNTIVQTL 165
>pdb|3LW5|4 Chain 4, Improved Model Of Plant Photosystem I
Length = 166
Score = 95.5 bits (236), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 70/191 (36%), Positives = 100/191 (52%), Gaps = 33/191 (17%)
Query: 63 LSKDPMAFQKYFNFEILHARWAMLGALGALVPEVLDMVGAFHLVEPVWWRVGYSKLQGET 122
L++DP + + E+++ RWAMLG G L+PEV +G ++ P W+ G +
Sbjct: 1 LAEDPENLRWFVQAELVNGRWAMLGVAGMLLPEVFTSIGIINV--PKWYAAGKEE----- 53
Query: 123 LDYLGIPGLHLAGSQGVIVIAICQALLMVGPECARYCGIE---ALEPLGIF----LP-GD 174
+ A S + VI + + E R+ I+ ++ IF LP G+
Sbjct: 54 ---------YFASSSTLFVIEFILSHYV---EIRRWQDIKNPGSVNQDPIFKQYSLPAGE 101
Query: 175 INYPGGALFDPLNLSKDPVAFEELKVKEIKNGRLAMVAWLGFYIQAAFTGKGPVQNLLDH 234
+ YPGG +F+PLN + E K KEI NGRL M+A+LGF IQ TGKGP NLL H
Sbjct: 102 VGYPGG-IFNPLNFAPT----LEAKEKEIANGRL-MLAFLGFIIQHNVTGKGPFDNLLQH 155
Query: 235 ISDPLHNNLLS 245
ISDP HN ++
Sbjct: 156 ISDPWHNTIVQ 166
>pdb|2O01|3 Chain 3, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 165
Score = 89.4 bits (220), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 63/175 (36%), Positives = 90/175 (51%), Gaps = 30/175 (17%)
Query: 77 EILHARWAMLGALGALVPEVLDMVGAFHLVEPV-WWRVGYSKLQGETLDYLGIPGLHLAG 135
EI++ R+AMLGA GA+ PE+L G + W++ G G + A
Sbjct: 6 EIINGRFAMLGAAGAIAPEILGKAGLIPAETALPWFQTGVIPPAGTYT--------YWAD 57
Query: 136 SQGVIVIAICQALLMVGPECAR--------------YCGIEALEPLGIFLPGDINYPGGA 181
+ + V+ + LM E R + G+E G+ G+ YPGG
Sbjct: 58 NYTLFVLEMA---LMGFAEHRRLQDWYNPGSMGKQYFLGLEK----GLAGSGNPAYPGGP 110
Query: 182 LFDPLNLSKDPVAFEELKVKEIKNGRLAMVAWLGFYIQAAFTGKGPVQNLLDHIS 236
F+PL KD + +ELK+KE+KNGRLAM+A LG++IQ TG GP QNLLDH++
Sbjct: 111 FFNPLGFGKDEKSLKELKLKEVKNGRLAMLAILGYFIQGLVTGVGPYQNLLDHLA 165
>pdb|3LW5|3 Chain 3, Improved Model Of Plant Photosystem I
Length = 172
Score = 80.1 bits (196), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 61/165 (36%), Positives = 85/165 (51%), Gaps = 22/165 (13%)
Query: 77 EILHARWAMLGALGALVPEVLDMVGAF-HLVEPVWWRVGYSKLQGETLDYLGIPGLHLAG 135
E+++ R+AMLGA+GA+ PE L VG W++ G G T +Y A
Sbjct: 19 EVINGRFAMLGAVGAIAPEYLGKVGLIPQETALAWFQTGVIPPAG-TYNYW-------AD 70
Query: 136 SQGVIVIAICQALLMVGPECARYCGIEALEPLG--IFL--------PGDINYPGGALFDP 185
+ + V+ + LM E R+ +G FL G+ YPGG F+P
Sbjct: 71 NYTLFVLEMA---LMGFAEHRRFQDWAKPGSMGKQYFLGLEKGFGGSGNPAYPGGPFFNP 127
Query: 186 LNLSKDPVAFEELKVKEIKNGRLAMVAWLGFYIQAAFTGKGPVQN 230
L KD + +ELK+KE+KNGRLAM+A LG++IQ TG GP QN
Sbjct: 128 LGFGKDEKSLKELKLKEVKNGRLAMLAILGYFIQGLVTGVGPYQN 172
>pdb|1VIA|A Chain A, Crystal Structure Of Shikimate Kinase
pdb|1VIA|B Chain B, Crystal Structure Of Shikimate Kinase
Length = 175
Score = 31.6 bits (70), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 28/100 (28%), Positives = 45/100 (45%), Gaps = 17/100 (17%)
Query: 158 YCGIEALEPLG--IFLPGDINYPGGALFDPLNLSKDPVAFEELKVKEIKNGRLAMVAWLG 215
+ + LE G I+L D Y L D +SK P+ ++E+K K++ N RL+
Sbjct: 84 FVNVSNLEKAGFCIYLKADFEYLKKRL-DKDEISKRPLFYDEIKAKKLYNERLSK----- 137
Query: 216 FYIQAAFTGKGPVQNLLDHISDPLHNNLLSMVKSMDDPSG 255
Y Q A N + +I + + LLS +K + G
Sbjct: 138 -YEQKA--------NFILNIENKNIDELLSEIKKVIKEGG 168
>pdb|3RED|A Chain A, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
pdb|3RED|B Chain B, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
pdb|3RED|C Chain C, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
pdb|3RED|D Chain D, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
pdb|3RED|E Chain E, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
pdb|3RED|F Chain F, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
pdb|3RED|G Chain G, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
pdb|3RED|H Chain H, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
pdb|3RED|I Chain I, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
pdb|3RED|J Chain J, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
pdb|3RED|K Chain K, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
pdb|3RED|L Chain L, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
Length = 521
Score = 27.7 bits (60), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 29/84 (34%), Positives = 37/84 (44%), Gaps = 14/84 (16%)
Query: 47 YLTGELPGDYGFDVAGL-----SKDPMAFQKYFNFEILHARWAMLGALGALVPEVLDMVG 101
Y +LPG GFD+ G+ D AF+ F E + + W G G LV EVLD G
Sbjct: 419 YKVEDLPGIDGFDILGIPLPENQTDDAAFET-FCREAVASYWHYHG--GCLVGEVLD--G 473
Query: 102 AFHLVEPVWWRVGYSKLQGETLDY 125
F + RV + G T Y
Sbjct: 474 DFRVTGINALRV----VDGSTFPY 493
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
0.323 0.141 0.446
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,675,805
Number of Sequences: 62578
Number of extensions: 424789
Number of successful extensions: 777
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 708
Number of HSP's gapped (non-prelim): 28
length of query: 305
length of database: 14,973,337
effective HSP length: 98
effective length of query: 207
effective length of database: 8,840,693
effective search space: 1830023451
effective search space used: 1830023451
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 51 (24.3 bits)