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= 020599
(324 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 = 180 bits (457), Expect = 8e-46, Method: Compositional matrix adjust.
Identities = 104/207 (50%), Positives = 127/207 (61%), Gaps = 10/207 (4%)
Query: 108 RQARNESLWYGEERPRWLGPIPYDYPSYLTGELPGDYGFDVAGLSKDPMAFQKYFNFEIL 167
+ ++ S WYG +R ++LGP + PSYLTGE PGDYG+D AGLS DP F K E++
Sbjct: 8 KTVQSSSPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVI 67
Query: 168 HARWAMLGALGALVPEVLDMVGAFHLVEPVWWRVGYSKLQGETLDYLGIPGLHLAGSQGV 227
H RWAMLGALG + PE+L G E VW++ G LDYLG P L A Q +
Sbjct: 68 HCRWAMLGALGCVFPELLARNGV-KFGEAVWFKAGSQIFSEGGLDYLGNPSLVHA--QSI 124
Query: 228 IVIAICQALLMVGPECARYCGIEALEPLGIFLPGDINYPGGALFDPLNLSKDPVAFEELK 287
+ I CQ +LM E R G PLG + D YPGG+ FDPL L+ DP AF ELK
Sbjct: 125 LAIWACQVILMGAVEGYRIAG----GPLGEVV--DPLYPGGS-FDPLGLADDPEAFAELK 177
Query: 288 VKEIKNGRLAMVAWLGFYIQAAFTGKG 314
VKEIKNGRLAM + GF++QA TGKG
Sbjct: 178 VKEIKNGRLAMFSMFGFFVQAIVTGKG 204
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 38/83 (45%), Gaps = 3/83 (3%)
Query: 240 GPECARYCGIEALEPLGIFLPGDINYPGGALFDPLNLSKDPVAFEELKVKEIKNGRLAMV 299
GP+ +Y G + E +L G+ +PG +D LS DP F + + E+ + R AM+
Sbjct: 18 GPDRVKYLGPFSGESPS-YLTGE--FPGDYGWDTAGLSADPETFAKNRELEVIHCRWAML 74
Query: 300 AWLGFYIQAAFTGKGMILVAALW 322
LG G+ A+W
Sbjct: 75 GALGCVFPELLARNGVKFGEAVW 97
>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 = 179 bits (454), Expect = 2e-45, Method: Compositional matrix adjust.
Identities = 104/213 (48%), Positives = 129/213 (60%), Gaps = 10/213 (4%)
Query: 102 KFKALARQARNESLWYGEERPRWLGPIPYDYPSYLTGELPGDYGFDVAGLSKDPMAFQKY 161
K + A + S WYG +R ++LGP + PSYLTGE PGDYG+D AGLS DP F K
Sbjct: 2 KSATTKKVASSGSPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFSKN 61
Query: 162 FNFEILHARWAMLGALGALVPEVLDMVGAFHLVEPVWWRVGYSKLQGETLDYLGIPGLHL 221
E++H+RWAMLGALG++ PE+L G E VW++ G LDYLG P L
Sbjct: 62 RELEVIHSRWAMLGALGSVFPELLSRNGV-KFGEAVWFKAGSQIFSEGGLDYLGNPSLVH 120
Query: 222 AGSQGVIVIAICQALLMVGPECARYCGIEALEPLGIFLPGDINYPGGALFDPLNLSKDPV 281
A Q ++ I Q +LM E R G PLG + D YPGG+ FDPL L+ DP
Sbjct: 121 A--QSILAIWATQVILMGAVEGYRIAG----GPLGEVV--DPLYPGGS-FDPLGLADDPE 171
Query: 282 AFEELKVKEIKNGRLAMVAWLGFYIQAAFTGKG 314
AF ELKVKE+KNGRLAM + GF++QA TGKG
Sbjct: 172 AFAELKVKELKNGRLAMFSMFGFFVQAIVTGKG 204
Score = 32.0 bits (71), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 39/83 (46%), Gaps = 3/83 (3%)
Query: 240 GPECARYCGIEALEPLGIFLPGDINYPGGALFDPLNLSKDPVAFEELKVKEIKNGRLAMV 299
GP+ +Y G + E +L G+ +PG +D LS DP F + + E+ + R AM+
Sbjct: 18 GPDRVKYLGPFSGESPS-YLTGE--FPGDYGWDTAGLSADPETFSKNRELEVIHSRWAML 74
Query: 300 AWLGFYIQAAFTGKGMILVAALW 322
LG + G+ A+W
Sbjct: 75 GALGSVFPELLSRNGVKFGEAVW 97
>pdb|1VCR|A Chain A, An Icosahedral Assembly Of Light-Harvesting Chlorophyll AB
Protein Complex From Pea Thylakoid Membranes
Length = 232
Score = 178 bits (451), Expect = 4e-45, Method: Compositional matrix adjust.
Identities = 104/213 (48%), Positives = 128/213 (60%), Gaps = 10/213 (4%)
Query: 102 KFKALARQARNESLWYGEERPRWLGPIPYDYPSYLTGELPGDYGFDVAGLSKDPMAFQKY 161
K + A + S WYG +R ++LGP + PSYLTGE PGDYG+D AGLS DP F K
Sbjct: 2 KSATTKKVASSGSPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFSKN 61
Query: 162 FNFEILHARWAMLGALGALVPEVLDMVGAFHLVEPVWWRVGYSKLQGETLDYLGIPGLHL 221
E++H+RWAMLGALG + PE+L G E VW++ G LDYLG P L
Sbjct: 62 RELEVIHSRWAMLGALGCVFPELLSRNGV-KFGEAVWFKAGSQIFSEGGLDYLGNPSLVH 120
Query: 222 AGSQGVIVIAICQALLMVGPECARYCGIEALEPLGIFLPGDINYPGGALFDPLNLSKDPV 281
A Q ++ I Q +LM E R G PLG + D YPGG+ FDPL L+ DP
Sbjct: 121 A--QSILAIWATQVILMGAVEGYRIAG----GPLGEVV--DPLYPGGS-FDPLGLADDPE 171
Query: 282 AFEELKVKEIKNGRLAMVAWLGFYIQAAFTGKG 314
AF ELKVKE+KNGRLAM + GF++QA TGKG
Sbjct: 172 AFAELKVKELKNGRLAMFSMFGFFVQAIVTGKG 204
Score = 32.0 bits (71), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 39/83 (46%), Gaps = 3/83 (3%)
Query: 240 GPECARYCGIEALEPLGIFLPGDINYPGGALFDPLNLSKDPVAFEELKVKEIKNGRLAMV 299
GP+ +Y G + E +L G+ +PG +D LS DP F + + E+ + R AM+
Sbjct: 18 GPDRVKYLGPFSGESPS-YLTGE--FPGDYGWDTAGLSADPETFSKNRELEVIHSRWAML 74
Query: 300 AWLGFYIQAAFTGKGMILVAALW 322
LG + G+ A+W
Sbjct: 75 GALGCVFPELLSRNGVKFGEAVW 97
>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 = 113 bits (283), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 76/226 (33%), Positives = 108/226 (47%), Gaps = 16/226 (7%)
Query: 93 KKAALQDSSKFKALARQARNESLWYGEERPRWL-GPIPYDYPSYLTGELPGDYGFDVAGL 151
+K + S+ + R +RP W G P P +L G LPGD+GFD GL
Sbjct: 36 RKLKVNSSTASPSRVRSTSTVCTVAEPDRPLWFPGSTP---PPWLDGSLPGDFGFDPLGL 92
Query: 152 SKDPMAFQKYFNFEILHARWAMLGALGALVPEVLDMVGAFHLVEPVWWRVGYSKLQGETL 211
DP + + E++H+RWAMLGA G +PE L +G L P W+ G + +T
Sbjct: 93 GSDPESLRWNVQAELVHSRWAMLGAAGIFIPEFLTKLGI--LNTPSWYTAGEQEYFTDTT 150
Query: 212 DYLGIPGLHLAGSQGVIVIAICQALLMVGPECARYCGIEALEPLGIFLPGDINYPGGALF 271
+ + + ++G I + P C + + P D+ YPGG F
Sbjct: 151 TLFIVELVFIGWAEGRRWADI------LNPGCVN---TDPIFPNNKLTGTDVGYPGGLWF 201
Query: 272 DPLNL-SKDPVAFEELKVKEIKNGRLAMVAWLGFYIQAAFTGKGMI 316
DPL S P +EL+ KEIKNGRLAM+A +G + Q +TG G I
Sbjct: 202 DPLGWGSASPQKLKELRTKEIKNGRLAMLAVMGAWFQHIYTGTGPI 247
>pdb|2O01|2 Chain 2, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 186
Score = 111 bits (277), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 69/185 (37%), Positives = 95/185 (51%), Gaps = 12/185 (6%)
Query: 133 PSYLTGELPGDYGFDVAGLSKDPMAFQKYFNFEILHARWAMLGALGALVPEVLDMVGAFH 192
P +L G LPGD+GFD GLS DP + + E++H+RWAMLGA G +PE L +G
Sbjct: 1 PEWLDGSLPGDFGFDPLGLSSDPESLRWNVQAELVHSRWAMLGAAGIFIPEFLTKLGI-- 58
Query: 193 LVEPVWWRVGYSKLQGETLDYLGIPGLHLAGSQGVIVIAICQALLMVGPECARYCGIEAL 252
L P W+ G + +T + + + ++G I P C + +
Sbjct: 59 LNTPSWYTAGEQEYFTDTTTLFIVELVFIGWAEGRRWADILN------PGCVN---TDPI 109
Query: 253 EPLGIFLPGDINYPGGALFDPLNL-SKDPVAFEELKVKEIKNGRLAMVAWLGFYIQAAFT 311
P D+ YPGG FDPL S P +EL+ KEIKNGRLAM+A +G + Q +T
Sbjct: 110 FPNNKLTGTDVGYPGGLWFDPLGWGSASPQKLKELRTKEIKNGRLAMLAVMGAWFQHIYT 169
Query: 312 GKGMI 316
G G I
Sbjct: 170 GTGPI 174
>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 = 104 bits (259), Expect = 8e-23, Method: Compositional matrix adjust.
Identities = 76/183 (41%), Positives = 99/183 (54%), Gaps = 22/183 (12%)
Query: 133 PSYLTGELPGDYGFDVAGLSKDPMAFQKYFNFEILHARWAMLGALGALVPEVLDMVGAFH 192
P+YL G PGD+GFD GL + P ++Y E++H RWAML G LVPE L G +
Sbjct: 55 PAYLDGSAPGDFGFDPLGLGEVPANLERYKESELIHCRWAMLAVPGILVPEAL---GYGN 111
Query: 193 LVEPVWWRVGYSKLQGETLDYLGIPGLHLAGSQGVIVIAICQALLMVGPECARYCGIEAL 252
V+ W + L G YLG P + ++AI + L + E R +
Sbjct: 112 WVKAQEW----AALPGGQATYLGNP---VPWGTLPTILAI-EFLAIAFVEHQRSMEKD-- 161
Query: 253 EPLGIFLPGDINYPGGALFDPLNLSKDPVAFEELKVKEIKNGRLAMVAWLGFYI-QAAFT 311
P YPGGA FDPL SKDP EELKVKEIKNGRLA++A++GF + Q+A+
Sbjct: 162 -------PEKKKYPGGA-FDPLGYSKDPKKLEELKVKEIKNGRLALLAFVGFCVQQSAYP 213
Query: 312 GKG 314
G G
Sbjct: 214 GTG 216
>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 = 103 bits (258), Expect = 9e-23, Method: Compositional matrix adjust.
Identities = 84/236 (35%), Positives = 114/236 (48%), Gaps = 39/236 (16%)
Query: 100 SSKFKALARQARNESLWYGEERPRWLGPIPYDYPSYLTGELPGDYGFDVAGLSKDPMAFQ 159
S K L + A + G +RP W SYL G LPGDYGFD GLS DP
Sbjct: 35 SRKASFLVKAAATPPVKQGSDRPLWFAS--KQSLSYLDGSLPGDYGFDPLGLS-DPEGTG 91
Query: 160 KYFN------FEILHARWAMLGALGALVPEVLDMVGAFHLVEPV-WWRVGYSKLQGETLD 212
+ EI++ R+AMLGA+GA+ PE+L G + W+R G+ G T +
Sbjct: 92 GFIEPKWLAYGEIINGRYAMLGAVGAIAPEILGKAGLIPQETALPWFRTGFIPPAG-TYN 150
Query: 213 YLGIPGLHLAGSQGVIVIAICQALLMVGPECARY--------------CGIEALEPLGIF 258
Y A S + V + LM E R+ G+E G+
Sbjct: 151 YW-------ADSYTLFVFEMA---LMGFAEHRRFQDWAKPGSMGKQYFLGLEK----GLG 196
Query: 259 LPGDINYPGGALFDPLNLSKDPVAFEELKVKEIKNGRLAMVAWLGFYIQAAFTGKG 314
G+ YPGG F+PL KD + ++LK+KE+KNGRLAM+A LG+++QA TG G
Sbjct: 197 GSGEPAYPGGPFFNPLGFGKDEKSLKDLKLKEVKNGRLAMLAILGYFVQALVTGVG 252
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 29/62 (46%), Gaps = 5/62 (8%)
Query: 141 PGDYGFDVAGLSKDPMAFQKYFNFEILHARWAMLGALGALVPEVLDMVGAF-----HLVE 195
PG F+ G KD + + E+ + R AML LG V ++ VG + HL +
Sbjct: 204 PGGPFFNPLGFGKDEKSLKDLKLKEVKNGRLAMLAILGYFVQALVTGVGPYQNLLDHLTD 263
Query: 196 PV 197
PV
Sbjct: 264 PV 265
>pdb|2O01|1 Chain 1, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 187
Score = 103 bits (258), Expect = 9e-23, Method: Compositional matrix adjust.
Identities = 76/183 (41%), Positives = 99/183 (54%), Gaps = 22/183 (12%)
Query: 133 PSYLTGELPGDYGFDVAGLSKDPMAFQKYFNFEILHARWAMLGALGALVPEVLDMVGAFH 192
P+YL G PGD+GFD GL + P ++Y E++H RWAML G LVPE L G +
Sbjct: 7 PAYLDGSAPGDFGFDPLGLGEVPANLERYKESELIHCRWAMLAVPGILVPEAL---GYGN 63
Query: 193 LVEPVWWRVGYSKLQGETLDYLGIPGLHLAGSQGVIVIAICQALLMVGPECARYCGIEAL 252
V+ W + L G YLG P + ++AI + L + E R +
Sbjct: 64 WVKAQEW----AALPGGQATYLGNP---VPWGTLPTILAI-EFLAIAFVEHQRSMEKD-- 113
Query: 253 EPLGIFLPGDINYPGGALFDPLNLSKDPVAFEELKVKEIKNGRLAMVAWLGFYI-QAAFT 311
P YPGGA FDPL SKDP EELKVKEIKNGRLA++A++GF + Q+A+
Sbjct: 114 -------PEKKKYPGGA-FDPLGYSKDPKKLEELKVKEIKNGRLALLAFVGFCVQQSAYP 165
Query: 312 GKG 314
G G
Sbjct: 166 GTG 168
>pdb|3LW5|1 Chain 1, Improved Model Of Plant Photosystem I
Length = 170
Score = 96.3 bits (238), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 72/175 (41%), Positives = 94/175 (53%), Gaps = 22/175 (12%)
Query: 141 PGDYGFDVAGLSKDPMAFQKYFNFEILHARWAMLGALGALVPEVLDMVGAFHLVEPVWWR 200
PGD+GFD GL + P ++Y E++H RWAML G LVPE L G + V+ W
Sbjct: 3 PGDFGFDPLGLGEVPANLERYKESELIHCRWAMLAVPGILVPEAL---GYGNWVKAQEW- 58
Query: 201 VGYSKLQGETLDYLGIPGLHLAGSQGVIVIAICQALLMVGPECARYCGIEALEPLGIFLP 260
+ L G YLG P + ++AI + L + E R + P
Sbjct: 59 ---AALPGGQATYLGNP---VPWGTLPTILAI-EFLAIAFVEHQRSMEKD---------P 102
Query: 261 GDINYPGGALFDPLNLSKDPVAFEELKVKEIKNGRLAMVAWLGFYI-QAAFTGKG 314
YPGGA FDPL SKDP EELKVKEIKNGRLA++A++GF + Q+A+ G G
Sbjct: 103 EKKKYPGGA-FDPLGYSKDPKKLEELKVKEIKNGRLALLAFVGFCVQQSAYPGTG 156
>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 = 95.9 bits (237), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 72/190 (37%), Positives = 100/190 (52%), Gaps = 33/190 (17%)
Query: 133 PSYLTGELPGDYGFDVAGLSKDPMAFQKYFNFEILHARWAMLGALGALVPEVLDMVGAFH 192
P YLTG LPGD GFD GL++DP + + E+++ RWAMLG G L+PEV +G +
Sbjct: 63 PGYLTGSLPGDNGFDPLGLAEDPENLRWFVQAELVNGRWAMLGVAGMLLPEVFTSIGIIN 122
Query: 193 LVEPVWWRVGYSKLQGETLDYLGIPGLHLAGSQGVIVIAICQALLMVGPECARYCGIE-- 250
+ P W+ G + + A S + VI + + E R+ I+
Sbjct: 123 V--PKWYAAGKEE--------------YFASSSTLFVIEFILSHYV---EIRRWQDIKNP 163
Query: 251 -ALEPLGIF----LP-GDINYPGGALFDPLNLSKDPVAFEELKVKEIKNGRLAMVAWLGF 304
++ IF LP G++ YPGG +F+PLN + E K KEI NGRL M+A+LGF
Sbjct: 164 GSVNQDPIFKQYSLPAGEVGYPGG-IFNPLNFAPT----LEAKEKEIANGRL-MLAFLGF 217
Query: 305 YIQAAFTGKG 314
IQ TGKG
Sbjct: 218 IIQHNVTGKG 227
Score = 37.7 bits (86), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 21/53 (39%), Positives = 27/53 (50%)
Query: 266 PGGALFDPLNLSKDPVAFEELKVKEIKNGRLAMVAWLGFYIQAAFTGKGMILV 318
PG FDPL L++DP E+ NGR AM+ G + FT G+I V
Sbjct: 71 PGDNGFDPLGLAEDPENLRWFVQAELVNGRWAMLGVAGMLLPEVFTSIGIINV 123
>pdb|3LW5|2 Chain 2, Improved Model Of Plant Photosystem I
Length = 176
Score = 85.1 bits (209), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 56/165 (33%), Positives = 81/165 (49%), Gaps = 12/165 (7%)
Query: 153 KDPMAFQKYFNFEILHARWAMLGALGALVPEVLDMVGAFHLVEPVWWRVGYSKLQGETLD 212
DP + + E++H+RWAMLGA G +PE L +G L P W+ G + +T
Sbjct: 1 SDPESLRWNVQAELVHSRWAMLGAAGIFIPEFLTKLGI--LNTPSWYTAGEQEYFTDTTT 58
Query: 213 YLGIPGLHLAGSQGVIVIAICQALLMVGPECARYCGIEALEPLGIFLPGDINYPGGALFD 272
+ + + ++G I + P C + + P D+ YPGG FD
Sbjct: 59 LFIVELVFIGWAEGRRWADI------LNPGCVN---TDPIFPNNKLTGTDVGYPGGLWFD 109
Query: 273 PLNL-SKDPVAFEELKVKEIKNGRLAMVAWLGFYIQAAFTGKGMI 316
PL S P +EL+ KEIKNGRLAM+A +G + Q +TG G I
Sbjct: 110 PLGWGSASPQKLKELRTKEIKNGRLAMLAVMGAWFQHIYTGTGPI 154
>pdb|3PL9|A Chain A, Crystal Structure Of Spinach Minor Light-Harvesting
Complex Cp29 At 2.80 Angstrom Resolution
Length = 243
Score = 77.4 bits (189), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 75/241 (31%), Positives = 98/241 (40%), Gaps = 69/241 (28%)
Query: 117 YGEERPRWLGPIPYDYPSYLTGELPGDYGFDVAGLSK----------------------- 153
+ +RP W P YL G L GDYGFD GL K
Sbjct: 7 FSTDRPLWYPGA--KAPEYLDGSLVGDYGFDPFGLGKPAEYLQYDYDGLDQNLAKNLAGD 64
Query: 154 --------------------DPMAFQKYFNFEILHARWAMLGALGALVPEVLDMVGAFHL 193
+ Q++ E++H RWAML LGAL E L +
Sbjct: 65 IIGTRTESADVKSTSLQPYSEVFGLQRFRECELIHGRWAMLATLGALTVEGLTGI----- 119
Query: 194 VEPVWWRVGYSKLQGETLDYLGIPGLHLAGSQGVIVIAICQALLMVGPECARYCGIEALE 253
W G +L E YLG P L S ++ + L++ E R ++ +
Sbjct: 120 ---TWQDAGKVELI-EGSSYLGQP---LPFSMTTLIW--IEVLVIGYIEFQRNAELDTEK 170
Query: 254 PLGIFLPGDINYPGGALFDPLNLSKDPVAFEELKVKEIKNGRLAMVAWLGFYIQAAFTGK 313
L YPGG FDPL L+ DP L++ EIK+ RLAMV +LGF +QAA TGK
Sbjct: 171 RL---------YPGGT-FDPLGLASDPEKKPILQLAEIKHARLAMVGFLGFAVQAAVTGK 220
Query: 314 G 314
G
Sbjct: 221 G 221
>pdb|3LW5|3 Chain 3, Improved Model Of Plant Photosystem I
Length = 172
Score = 73.2 bits (178), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 58/165 (35%), Positives = 82/165 (49%), Gaps = 30/165 (18%)
Query: 165 EILHARWAMLGALGALVPEVLDMVGAF-HLVEPVWWRVGYSKLQGETLDYLGIPGLHLAG 223
E+++ R+AMLGA+GA+ PE L VG W++ G G T +Y A
Sbjct: 19 EVINGRFAMLGAVGAIAPEYLGKVGLIPQETALAWFQTGVIPPAG-TYNYW-------AD 70
Query: 224 SQGVIVIAICQALLMVGPECARY--------------CGIEALEPLGIFLPGDINYPGGA 269
+ + V+ + LM E R+ G+E G G+ YPGG
Sbjct: 71 NYTLFVLEMA---LMGFAEHRRFQDWAKPGSMGKQYFLGLEK----GFGGSGNPAYPGGP 123
Query: 270 LFDPLNLSKDPVAFEELKVKEIKNGRLAMVAWLGFYIQAAFTGKG 314
F+PL KD + +ELK+KE+KNGRLAM+A LG++IQ TG G
Sbjct: 124 FFNPLGFGKDEKSLKELKLKEVKNGRLAMLAILGYFIQGLVTGVG 168
>pdb|2O01|3 Chain 3, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 165
Score = 72.4 bits (176), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 57/155 (36%), Positives = 79/155 (50%), Gaps = 10/155 (6%)
Query: 165 EILHARWAMLGALGALVPEVLDMVGAFHLVEPV-WWRVGYSKLQGETL---DYLGIPGLH 220
EI++ R+AMLGA GA+ PE+L G + W++ G G D + L
Sbjct: 6 EIINGRFAMLGAAGAIAPEILGKAGLIPAETALPWFQTGVIPPAGTYTYWADNYTLFVLE 65
Query: 221 LAGSQGVIVIAICQALLMVGPECARY-CGIEALEPLGIFLPGDINYPGGALFDPLNLSKD 279
+A G Q G +Y G+E G+ G+ YPGG F+PL KD
Sbjct: 66 MA-LMGFAEHRRLQDWYNPGSMGKQYFLGLEK----GLAGSGNPAYPGGPFFNPLGFGKD 120
Query: 280 PVAFEELKVKEIKNGRLAMVAWLGFYIQAAFTGKG 314
+ +ELK+KE+KNGRLAM+A LG++IQ TG G
Sbjct: 121 EKSLKELKLKEVKNGRLAMLAILGYFIQGLVTGVG 155
>pdb|2O01|4 Chain 4, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 165
Score = 71.6 bits (174), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 58/168 (34%), Positives = 84/168 (50%), Gaps = 32/168 (19%)
Query: 155 PMAFQKYFNFEILHARWAMLGALGALVPEVLDMVGAFHLVEPVWWRVGYSKLQGETLDYL 214
P + + E+++ RWAMLG G L+PEV +G ++ P W+ G +
Sbjct: 1 PENLRWFVQAELVNGRWAMLGVAGMLLPEVFTSIGIINV--PKWYAAGKEE--------- 49
Query: 215 GIPGLHLAGSQGVIVIAICQALLMVGPECARYCGIE---ALEPLGIF----LP-GDINYP 266
+ A S + VI + + E R+ I+ ++ IF LP G++ YP
Sbjct: 50 -----YFASSSTLFVIEFILSHYV---EIRRWQDIKNPGSVNQDPIFKQYSLPAGEVGYP 101
Query: 267 GGALFDPLNLSKDPVAFEELKVKEIKNGRLAMVAWLGFYIQAAFTGKG 314
GG +F+PLN + E K KEI NGRLAM+A+LGF IQ TGKG
Sbjct: 102 GG-IFNPLNFAPT----LEAKEKEIANGRLAMLAFLGFIIQHNVTGKG 144
>pdb|3LW5|4 Chain 4, Improved Model Of Plant Photosystem I
Length = 166
Score = 70.1 bits (170), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 59/172 (34%), Positives = 87/172 (50%), Gaps = 33/172 (19%)
Query: 151 LSKDPMAFQKYFNFEILHARWAMLGALGALVPEVLDMVGAFHLVEPVWWRVGYSKLQGET 210
L++DP + + E+++ RWAMLG G L+PEV +G ++ P W+ G +
Sbjct: 1 LAEDPENLRWFVQAELVNGRWAMLGVAGMLLPEVFTSIGIINV--PKWYAAGKEE----- 53
Query: 211 LDYLGIPGLHLAGSQGVIVIAICQALLMVGPECARYCGIE---ALEPLGIF----LP-GD 262
+ A S + VI + + E R+ I+ ++ IF LP G+
Sbjct: 54 ---------YFASSSTLFVIEFILSHYV---EIRRWQDIKNPGSVNQDPIFKQYSLPAGE 101
Query: 263 INYPGGALFDPLNLSKDPVAFEELKVKEIKNGRLAMVAWLGFYIQAAFTGKG 314
+ YPGG +F+PLN + E K KEI NGRL M+A+LGF IQ TGKG
Sbjct: 102 VGYPGG-IFNPLNFAPT----LEAKEKEIANGRL-MLAFLGFIIQHNVTGKG 147
>pdb|1VIA|A Chain A, Crystal Structure Of Shikimate Kinase
pdb|1VIA|B Chain B, Crystal Structure Of Shikimate Kinase
Length = 175
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 29/54 (53%), Gaps = 3/54 (5%)
Query: 246 YCGIEALEPLG--IFLPGDINYPGGALFDPLNLSKDPVAFEELKVKEIKNGRLA 297
+ + LE G I+L D Y L D +SK P+ ++E+K K++ N RL+
Sbjct: 84 FVNVSNLEKAGFCIYLKADFEYLKKRL-DKDEISKRPLFYDEIKAKKLYNERLS 136
>pdb|2WJA|A Chain A, Crystal Structure Of The Tyrosine Phosphatase Wzb From
Escherichia Coli K30 In Complex With Phosphate.
pdb|2WJA|B Chain B, Crystal Structure Of The Tyrosine Phosphatase Wzb From
Escherichia Coli K30 In Complex With Phosphate
Length = 168
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 27/52 (51%), Gaps = 3/52 (5%)
Query: 63 LVFSAIPFTAVKAIANSPLGELLQNRMLETKKAALQDSSKFKALARQARNES 114
L+F +I I SP+GE L R+L +KK +S+ AL A +ES
Sbjct: 24 LMFDSILVICTGNICRSPIGERLLRRLLPSKKI---NSAGVGALVDHAADES 72
>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 = 28.5 bits (62), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 29/84 (34%), Positives = 37/84 (44%), Gaps = 14/84 (16%)
Query: 135 YLTGELPGDYGFDVAGL-----SKDPMAFQKYFNFEILHARWAMLGALGALVPEVLDMVG 189
Y +LPG GFD+ G+ D AF+ F E + + W G G LV EVLD G
Sbjct: 419 YKVEDLPGIDGFDILGIPLPENQTDDAAFET-FCREAVASYWHYHG--GCLVGEVLD--G 473
Query: 190 AFHLVEPVWWRVGYSKLQGETLDY 213
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
0.322 0.140 0.434
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,630,620
Number of Sequences: 62578
Number of extensions: 407195
Number of successful extensions: 836
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 770
Number of HSP's gapped (non-prelim): 37
length of query: 324
length of database: 14,973,337
effective HSP length: 99
effective length of query: 225
effective length of database: 8,778,115
effective search space: 1975075875
effective search space used: 1975075875
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (24.3 bits)