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= 028008
(215 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 359 bits (921), Expect = e-100, Method: Compositional matrix adjust.
Identities = 180/208 (86%), Positives = 186/208 (89%), Gaps = 3/208 (1%)
Query: 1 MATVTTQASAAVFRPCASKSRFLTGSSGKLNREVALKPV--SSSASFKVEAK-GEWLPGL 57
MATVTTQASAA+F PC KSRFL GSSGKLNR VA +PV S SASFKVEAK GEWLPGL
Sbjct: 1 MATVTTQASAAIFGPCGLKSRFLGGSSGKLNRGVAFRPVGCSPSASFKVEAKKGEWLPGL 60
Query: 58 ASPTYLNGSLPGDNGFDPLGLAEDPENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIGI 117
ASP YL GSLPGDNGFDPLGLAEDPENL+W+VQAELVN RWAMLGV GMLLPEVFT IGI
Sbjct: 61 ASPGYLTGSLPGDNGFDPLGLAEDPENLRWFVQAELVNGRWAMLGVAGMLLPEVFTSIGI 120
Query: 118 INAPQWYDAGKAEYFASSSTLFVIEFILFHYVEIRRWQDIKNPGSVNQDPIFKQYSLPPN 177
IN P+WY AGK EYFASSSTLFVIEFIL HYVEIRRWQDIKNPGSVNQDPIFKQYSLP
Sbjct: 121 INVPKWYAAGKEEYFASSSTLFVIEFILSHYVEIRRWQDIKNPGSVNQDPIFKQYSLPAG 180
Query: 178 EVGYPGGIFNPLNFAPTDEAKEKELANG 205
EVGYPGGIFNPLNFAPT EAKEKE+ANG
Sbjct: 181 EVGYPGGIFNPLNFAPTLEAKEKEIANG 208
>pdb|3LW5|4 Chain 4, Improved Model Of Plant Photosystem I
Length = 166
Score = 238 bits (607), Expect = 2e-63, Method: Compositional matrix adjust.
Identities = 114/128 (89%), Positives = 118/128 (92%)
Query: 78 LAEDPENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIGIINAPQWYDAGKAEYFASSST 137
LAEDPENL+W+VQAELVN RWAMLGV GMLLPEVFT IGIIN P+WY AGK EYFASSST
Sbjct: 1 LAEDPENLRWFVQAELVNGRWAMLGVAGMLLPEVFTSIGIINVPKWYAAGKEEYFASSST 60
Query: 138 LFVIEFILFHYVEIRRWQDIKNPGSVNQDPIFKQYSLPPNEVGYPGGIFNPLNFAPTDEA 197
LFVIEFIL HYVEIRRWQDIKNPGSVNQDPIFKQYSLP EVGYPGGIFNPLNFAPT EA
Sbjct: 61 LFVIEFILSHYVEIRRWQDIKNPGSVNQDPIFKQYSLPAGEVGYPGGIFNPLNFAPTLEA 120
Query: 198 KEKELANG 205
KEKE+ANG
Sbjct: 121 KEKEIANG 128
>pdb|2O01|4 Chain 4, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 165
Score = 231 bits (588), Expect = 3e-61, Method: Compositional matrix adjust.
Identities = 113/133 (84%), Positives = 118/133 (88%), Gaps = 1/133 (0%)
Query: 82 PENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIGIINAPQWYDAGKAEYFASSSTLFVI 141
PENL+W+VQAELVN RWAMLGV GMLLPEVFT IGIIN P+WY AGK EYFASSSTLFVI
Sbjct: 1 PENLRWFVQAELVNGRWAMLGVAGMLLPEVFTSIGIINVPKWYAAGKEEYFASSSTLFVI 60
Query: 142 EFILFHYVEIRRWQDIKNPGSVNQDPIFKQYSLPPNEVGYPGGIFNPLNFAPTDEAKEKE 201
EFIL HYVEIRRWQDIKNPGSVNQDPIFKQYSLP EVGYPGGIFNPLNFAPT EAKEKE
Sbjct: 61 EFILSHYVEIRRWQDIKNPGSVNQDPIFKQYSLPAGEVGYPGGIFNPLNFAPTLEAKEKE 120
Query: 202 LANGNNSAKLAYF 214
+ANG A LA+
Sbjct: 121 IANG-RLAMLAFL 132
>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 = 187 bits (474), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 93/193 (48%), Positives = 120/193 (62%), Gaps = 6/193 (3%)
Query: 15 PCASKSRFLTGSSGKLNREVA----LKPVSSSASFKVEAKGEWLPGLASPTYLNGSLPGD 70
P + FL G K+N A ++ S+ + + W PG P +L+GSLPGD
Sbjct: 26 PSGTSKAFL-GRKLKVNSSTASPSRVRSTSTVCTVAEPDRPLWFPGSTPPPWLDGSLPGD 84
Query: 71 NGFDPLGLAEDPENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIGIINAPQWYDAGKAE 130
GFDPLGL DPE+L+W VQAELV+SRWAMLG G+ +PE TK+GI+N P WY AG+ E
Sbjct: 85 FGFDPLGLGSDPESLRWNVQAELVHSRWAMLGAAGIFIPEFLTKLGILNTPSWYTAGEQE 144
Query: 131 YFASSSTLFVIEFILFHYVEIRRWQDIKNPGSVNQDPIFKQYSLPPNEVGYPGGI-FNPL 189
YF ++TLF++E + + E RRW DI NPG VN DPIF L +VGYPGG+ F+PL
Sbjct: 145 YFTDTTTLFIVELVFIGWAEGRRWADILNPGCVNTDPIFPNNKLTGTDVGYPGGLWFDPL 204
Query: 190 NFAPTDEAKEKEL 202
+ K KEL
Sbjct: 205 GWGSASPQKLKEL 217
Score = 36.6 bits (83), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 21/53 (39%), Positives = 27/53 (50%), Gaps = 1/53 (1%)
Query: 68 PGDNGFDPLGLAE-DPENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIGIIN 119
PG FDPLG P+ LK E+ N R AML V+G ++T G I+
Sbjct: 196 PGGLWFDPLGWGSASPQKLKELRTKEIKNGRLAMLAVMGAWFQHIYTGTGPID 248
>pdb|2O01|2 Chain 2, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 186
Score = 177 bits (450), Expect = 3e-45, Method: Compositional matrix adjust.
Identities = 82/144 (56%), Positives = 103/144 (71%), Gaps = 1/144 (0%)
Query: 60 PTYLNGSLPGDNGFDPLGLAEDPENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIGIIN 119
P +L+GSLPGD GFDPLGL+ DPE+L+W VQAELV+SRWAMLG G+ +PE TK+GI+N
Sbjct: 1 PEWLDGSLPGDFGFDPLGLSSDPESLRWNVQAELVHSRWAMLGAAGIFIPEFLTKLGILN 60
Query: 120 APQWYDAGKAEYFASSSTLFVIEFILFHYVEIRRWQDIKNPGSVNQDPIFKQYSLPPNEV 179
P WY AG+ EYF ++TLF++E + + E RRW DI NPG VN DPIF L +V
Sbjct: 61 TPSWYTAGEQEYFTDTTTLFIVELVFIGWAEGRRWADILNPGCVNTDPIFPNNKLTGTDV 120
Query: 180 GYPGGI-FNPLNFAPTDEAKEKEL 202
GYPGG+ F+PL + K KEL
Sbjct: 121 GYPGGLWFDPLGWGSASPQKLKEL 144
Score = 35.4 bits (80), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 21/53 (39%), Positives = 27/53 (50%), Gaps = 1/53 (1%)
Query: 68 PGDNGFDPLGLAE-DPENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIGIIN 119
PG FDPLG P+ LK E+ N R AML V+G ++T G I+
Sbjct: 123 PGGLWFDPLGWGSASPQKLKELRTKEIKNGRLAMLAVMGAWFQHIYTGTGPID 175
>pdb|3LW5|2 Chain 2, Improved Model Of Plant Photosystem I
Length = 176
Score = 147 bits (370), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 67/123 (54%), Positives = 85/123 (69%), Gaps = 1/123 (0%)
Query: 81 DPENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIGIINAPQWYDAGKAEYFASSSTLFV 140
DPE+L+W VQAELV+SRWAMLG G+ +PE TK+GI+N P WY AG+ EYF ++TLF+
Sbjct: 2 DPESLRWNVQAELVHSRWAMLGAAGIFIPEFLTKLGILNTPSWYTAGEQEYFTDTTTLFI 61
Query: 141 IEFILFHYVEIRRWQDIKNPGSVNQDPIFKQYSLPPNEVGYPGGI-FNPLNFAPTDEAKE 199
+E + + E RRW DI NPG VN DPIF L +VGYPGG+ F+PL + K
Sbjct: 62 VELVFIGWAEGRRWADILNPGCVNTDPIFPNNKLTGTDVGYPGGLWFDPLGWGSASPQKL 121
Query: 200 KEL 202
KEL
Sbjct: 122 KEL 124
Score = 37.0 bits (84), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 26/70 (37%), Positives = 33/70 (47%), Gaps = 3/70 (4%)
Query: 68 PGDNGFDPLGLAE-DPENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIGIINA--PQWY 124
PG FDPLG P+ LK E+ N R AML V+G ++T G I+
Sbjct: 103 PGGLWFDPLGWGSASPQKLKELRTKEIKNGRLAMLAVMGAWFQHIYTGTGPIDNLFAHLA 162
Query: 125 DAGKAEYFAS 134
D G A FA+
Sbjct: 163 DPGHATIFAA 172
>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 = 111 bits (278), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 80/191 (41%), Positives = 99/191 (51%), Gaps = 35/191 (18%)
Query: 53 WLPGLASPTYLNGSLPGDNGFDPLGLAEDPENL------KWYVQAELVNSRWAMLGVVGM 106
W S +YL+GSLPGD GFDPLGL+ DPE KW E++N R+AMLG VG
Sbjct: 59 WFASKQSLSYLDGSLPGDYGFDPLGLS-DPEGTGGFIEPKWLAYGEIINGRYAMLGAVGA 117
Query: 107 LLPEVFTKIGII---NAPQWYD------AGKAEYFASSSTLFVIEFILFHYVEIRRWQDI 157
+ PE+ K G+I A W+ AG Y+A S TLFV E L + E RR+QD
Sbjct: 118 IAPEILGKAGLIPQETALPWFRTGFIPPAGTYNYWADSYTLFVFEMALMGFAEHRRFQDW 177
Query: 158 KNPGSVNQDPIFKQYSL-------PPNEVGYPGG-IFNPLNFAPTDEA----KEKELANG 205
PGS+ KQY L E YPGG FNPL F +++ K KE+ NG
Sbjct: 178 AKPGSMG-----KQYFLGLEKGLGGSGEPAYPGGPFFNPLGFGKDEKSLKDLKLKEVKNG 232
Query: 206 NNS--AKLAYF 214
+ A L YF
Sbjct: 233 RLAMLAILGYF 243
Score = 37.0 bits (84), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 32/63 (50%), Gaps = 5/63 (7%)
Query: 54 LPGLASPTYLNGSLPGDNGFDPLGLAEDPENLKWYVQAELVNSRWAMLGVVGMLLPEVFT 113
L G P Y PG F+PLG +D ++LK E+ N R AML ++G + + T
Sbjct: 195 LGGSGEPAY-----PGGPFFNPLGFGKDEKSLKDLKLKEVKNGRLAMLAILGYFVQALVT 249
Query: 114 KIG 116
+G
Sbjct: 250 GVG 252
>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 = 106 bits (264), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 64/173 (36%), Positives = 91/173 (52%), Gaps = 29/173 (16%)
Query: 46 KVEAKGEWLPGLASPTYLNGSLPGDNGFDPLGLAEDPENLKWYVQAELVNSRWAMLGVVG 105
++ W+PG P YL+GS PGD GFDPLGL E P NL+ Y ++EL++ RWAML V G
Sbjct: 41 RIRMAAHWMPGEPRPAYLDGSAPGDFGFDPLGLGEVPANLERYKESELIHCRWAMLAVPG 100
Query: 106 MLLPEVFTKIGIINAPQW--YDAGKAEYFASS------STLFVIEFILFHYVEIRRWQDI 157
+L+PE + A +W G+A Y + T+ IEF+ +VE +R
Sbjct: 101 ILVPEALGYGNWVKAQEWAALPGGQATYLGNPVPWGTLPTILAIEFLAIAFVEHQR---- 156
Query: 158 KNPGSVNQDPIFKQYSLPPNEVGYPGGIFNPLNFAPT----DEAKEKELANGN 206
S+ +DP K+Y PGG F+PL ++ +E K KE+ NG
Sbjct: 157 ----SMEKDPEKKKY---------PGGAFDPLGYSKDPKKLEELKVKEIKNGR 196
Score = 32.3 bits (72), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 22/36 (61%)
Query: 73 FDPLGLAEDPENLKWYVQAELVNSRWAMLGVVGMLL 108
FDPLG ++DP+ L+ E+ N R A+L VG +
Sbjct: 172 FDPLGYSKDPKKLEELKVKEIKNGRLALLAFVGFCV 207
>pdb|2O01|1 Chain 1, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 187
Score = 100 bits (250), Expect = 5e-22, Method: Compositional matrix adjust.
Identities = 63/165 (38%), Positives = 88/165 (53%), Gaps = 29/165 (17%)
Query: 54 LPGLASPTYLNGSLPGDNGFDPLGLAEDPENLKWYVQAELVNSRWAMLGVVGMLLPEVFT 113
+PG P YL+GS PGD GFDPLGL E P NL+ Y ++EL++ RWAML V G+L+PE
Sbjct: 1 MPGEPRPAYLDGSAPGDFGFDPLGLGEVPANLERYKESELIHCRWAMLAVPGILVPEALG 60
Query: 114 KIGIINAPQW--YDAGKAEYFASS------STLFVIEFILFHYVEIRRWQDIKNPGSVNQ 165
+ A +W G+A Y + T+ IEF+ +VE +R S+ +
Sbjct: 61 YGNWVKAQEWAALPGGQATYLGNPVPWGTLPTILAIEFLAIAFVEHQR--------SMEK 112
Query: 166 DPIFKQYSLPPNEVGYPGGIFNPLNFAPT----DEAKEKELANGN 206
DP K+Y PGG F+PL ++ +E K KE+ NG
Sbjct: 113 DPEKKKY---------PGGAFDPLGYSKDPKKLEELKVKEIKNGR 148
Score = 32.3 bits (72), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 22/36 (61%)
Query: 73 FDPLGLAEDPENLKWYVQAELVNSRWAMLGVVGMLL 108
FDPLG ++DP+ L+ E+ N R A+L VG +
Sbjct: 124 FDPLGYSKDPKKLEELKVKEIKNGRLALLAFVGFCV 159
>pdb|3LW5|1 Chain 1, Improved Model Of Plant Photosystem I
Length = 170
Score = 88.2 bits (217), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 57/153 (37%), Positives = 81/153 (52%), Gaps = 29/153 (18%)
Query: 66 SLPGDNGFDPLGLAEDPENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIGIINAPQW-- 123
S PGD GFDPLGL E P NL+ Y ++EL++ RWAML V G+L+PE + A +W
Sbjct: 1 SAPGDFGFDPLGLGEVPANLERYKESELIHCRWAMLAVPGILVPEALGYGNWVKAQEWAA 60
Query: 124 YDAGKAEY------FASSSTLFVIEFILFHYVEIRRWQDIKNPGSVNQDPIFKQYSLPPN 177
G+A Y + + T+ IEF+ +VE +R S+ +DP K+Y
Sbjct: 61 LPGGQATYLGNPVPWGTLPTILAIEFLAIAFVEHQR--------SMEKDPEKKKY----- 107
Query: 178 EVGYPGGIFNPLNFAPT----DEAKEKELANGN 206
PGG F+PL ++ +E K KE+ NG
Sbjct: 108 ----PGGAFDPLGYSKDPKKLEELKVKEIKNGR 136
Score = 32.3 bits (72), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 22/36 (61%)
Query: 73 FDPLGLAEDPENLKWYVQAELVNSRWAMLGVVGMLL 108
FDPLG ++DP+ L+ E+ N R A+L VG +
Sbjct: 112 FDPLGYSKDPKKLEELKVKEIKNGRLALLAFVGFCV 147
>pdb|3LW5|3 Chain 3, Improved Model Of Plant Photosystem I
Length = 172
Score = 79.3 bits (194), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 61/163 (37%), Positives = 78/163 (47%), Gaps = 34/163 (20%)
Query: 81 DPENL------KWYVQAELVNSRWAMLGVVGMLLPEVFTKIGII---NAPQWYD------ 125
DPE +W E++N R+AMLG VG + PE K+G+I A W+
Sbjct: 2 DPEGTGGFIEPRWLAYGEVINGRFAMLGAVGAIAPEYLGKVGLIPQETALAWFQTGVIPP 61
Query: 126 AGKAEYFASSSTLFVIEFILFHYVEIRRWQDIKNPGSVNQDPIFKQYSL-------PPNE 178
AG Y+A + TLFV+E L + E RR+QD PGS+ KQY L
Sbjct: 62 AGTYNYWADNYTLFVLEMALMGFAEHRRFQDWAKPGSMG-----KQYFLGLEKGFGGSGN 116
Query: 179 VGYPGG-IFNPLNFAPTD----EAKEKELANGNNS--AKLAYF 214
YPGG FNPL F + E K KE+ NG + A L YF
Sbjct: 117 PAYPGGPFFNPLGFGKDEKSLKELKLKEVKNGRLAMLAILGYF 159
Score = 37.0 bits (84), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 30/53 (56%)
Query: 64 NGSLPGDNGFDPLGLAEDPENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIG 116
N + PG F+PLG +D ++LK E+ N R AML ++G + + T +G
Sbjct: 116 NPAYPGGPFFNPLGFGKDEKSLKELKLKEVKNGRLAMLAILGYFIQGLVTGVG 168
>pdb|2O01|3 Chain 3, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 165
Score = 77.0 bits (188), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 58/151 (38%), Positives = 73/151 (48%), Gaps = 28/151 (18%)
Query: 87 WYVQAELVNSRWAMLGVVGMLLPEVFTKIGII---NAPQWYD------AGKAEYFASSST 137
W E++N R+AMLG G + PE+ K G+I A W+ AG Y+A + T
Sbjct: 1 WLAYGEIINGRFAMLGAAGAIAPEILGKAGLIPAETALPWFQTGVIPPAGTYTYWADNYT 60
Query: 138 LFVIEFILFHYVEIRRWQDIKNPGSVNQDPIFKQYSL-------PPNEVGYPGG-IFNPL 189
LFV+E L + E RR QD NPGS+ KQY L YPGG FNPL
Sbjct: 61 LFVLEMALMGFAEHRRLQDWYNPGSMG-----KQYFLGLEKGLAGSGNPAYPGGPFFNPL 115
Query: 190 NFAPTD----EAKEKELANGNNS--AKLAYF 214
F + E K KE+ NG + A L YF
Sbjct: 116 GFGKDEKSLKELKLKEVKNGRLAMLAILGYF 146
Score = 37.0 bits (84), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 33/63 (52%), Gaps = 5/63 (7%)
Query: 54 LPGLASPTYLNGSLPGDNGFDPLGLAEDPENLKWYVQAELVNSRWAMLGVVGMLLPEVFT 113
L G +P Y PG F+PLG +D ++LK E+ N R AML ++G + + T
Sbjct: 98 LAGSGNPAY-----PGGPFFNPLGFGKDEKSLKELKLKEVKNGRLAMLAILGYFIQGLVT 152
Query: 114 KIG 116
+G
Sbjct: 153 GVG 155
>pdb|1VCR|A Chain A, An Icosahedral Assembly Of Light-Harvesting Chlorophyll AB
Protein Complex From Pea Thylakoid Membranes
Length = 232
Score = 76.3 bits (186), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 59/166 (35%), Positives = 84/166 (50%), Gaps = 18/166 (10%)
Query: 59 SPTYLNGSLPGDNGFDPLGLAEDPENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIGI- 117
SP+YL G PGD G+D GL+ DPE + E+++SRWAMLG +G + PE+ ++ G+
Sbjct: 32 SPSYLTGEFPGDYGWDTAGLSADPETFSKNRELEVIHSRWAMLGALGCVFPELLSRNGVK 91
Query: 118 INAPQWYDAGKAEYFASSSTLFVIEFILFHYVEIRR-W-QDIKNPGSVNQDPIFKQYSLP 175
W+ AG ++ F+ ++ L H I W + G+V ++ P
Sbjct: 92 FGEAVWFKAG-SQIFSEGGLDYLGNPSLVHAQSILAIWATQVILMGAVEG---YRIAGGP 147
Query: 176 PNEVG---YPGGIFNPLNFAPTDEA----KEKELANGNNSAKLAYF 214
EV YPGG F+PL A EA K KEL NG +LA F
Sbjct: 148 LGEVVDPLYPGGSFDPLGLADDPEAFAELKVKELKNG----RLAMF 189
Score = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 23/60 (38%), Positives = 28/60 (46%), Gaps = 6/60 (10%)
Query: 57 LASPTYLNGSLPGDNGFDPLGLAEDPENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIG 116
+ P Y GS FDPLGLA+DPE EL N R AM + G + + T G
Sbjct: 151 VVDPLYPGGS------FDPLGLADDPEAFAELKVKELKNGRLAMFSMFGFFVQAIVTGKG 204
>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 = 75.9 bits (185), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 59/166 (35%), Positives = 84/166 (50%), Gaps = 18/166 (10%)
Query: 59 SPTYLNGSLPGDNGFDPLGLAEDPENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIGI- 117
SP+YL G PGD G+D GL+ DPE + E+++SRWAMLG +G + PE+ ++ G+
Sbjct: 32 SPSYLTGEFPGDYGWDTAGLSADPETFSKNRELEVIHSRWAMLGALGSVFPELLSRNGVK 91
Query: 118 INAPQWYDAGKAEYFASSSTLFVIEFILFHYVEIRR-W-QDIKNPGSVNQDPIFKQYSLP 175
W+ AG ++ F+ ++ L H I W + G+V ++ P
Sbjct: 92 FGEAVWFKAG-SQIFSEGGLDYLGNPSLVHAQSILAIWATQVILMGAVEG---YRIAGGP 147
Query: 176 PNEVG---YPGGIFNPLNFAPTDEA----KEKELANGNNSAKLAYF 214
EV YPGG F+PL A EA K KEL NG +LA F
Sbjct: 148 LGEVVDPLYPGGSFDPLGLADDPEAFAELKVKELKNG----RLAMF 189
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 23/60 (38%), Positives = 28/60 (46%), Gaps = 6/60 (10%)
Query: 57 LASPTYLNGSLPGDNGFDPLGLAEDPENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIG 116
+ P Y GS FDPLGLA+DPE EL N R AM + G + + T G
Sbjct: 151 VVDPLYPGGS------FDPLGLADDPEAFAELKVKELKNGRLAMFSMFGFFVQAIVTGKG 204
>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 = 73.2 bits (178), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 57/176 (32%), Positives = 79/176 (44%), Gaps = 38/176 (21%)
Query: 59 SPTYLNGSLPGDNGFDPLGLAEDPENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIGI- 117
SP+YL G PGD G+D GL+ DPE + E+++ RWAMLG +G + PE+ + G+
Sbjct: 32 SPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELLARNGVK 91
Query: 118 INAPQWYDAGKA-------EYFASSS--------TLFVIEFILFHYVEIRRWQDIKNPGS 162
W+ AG +Y + S ++ + IL VE R P
Sbjct: 92 FGEAVWFKAGSQIFSEGGLDYLGNPSLVHAQSILAIWACQVILMGAVEGYRIAG--GPLG 149
Query: 163 VNQDPIFKQYSLPPNEVGYPGGIFNPLNFAPTDEA----KEKELANGNNSAKLAYF 214
DP+ YPGG F+PL A EA K KE+ NG +LA F
Sbjct: 150 EVVDPL------------YPGGSFDPLGLADDPEAFAELKVKEIKNG----RLAMF 189
Score = 37.4 bits (85), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 28/60 (46%), Gaps = 6/60 (10%)
Query: 57 LASPTYLNGSLPGDNGFDPLGLAEDPENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIG 116
+ P Y GS FDPLGLA+DPE E+ N R AM + G + + T G
Sbjct: 151 VVDPLYPGGS------FDPLGLADDPEAFAELKVKEIKNGRLAMFSMFGFFVQAIVTGKG 204
>pdb|3PL9|A Chain A, Crystal Structure Of Spinach Minor Light-Harvesting
Complex Cp29 At 2.80 Angstrom Resolution
Length = 243
Score = 70.1 bits (170), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 56/200 (28%), Positives = 74/200 (37%), Gaps = 77/200 (38%)
Query: 53 WLPGLASPTYLNGSLPGDNGFDPLGLAEDPENLKW------------------------- 87
W PG +P YL+GSL GD GFDP GL + E L++
Sbjct: 14 WYPGAKAPEYLDGSLVGDYGFDPFGLGKPAEYLQYDYDGLDQNLAKNLAGDIIGTRTESA 73
Query: 88 ------------------YVQAELVNSRWAMLGVVGMLLPEVFTKIGIINAPQWYDAGKA 129
+ + EL++ RWAML +G L E T I W DAGK
Sbjct: 74 DVKSTSLQPYSEVFGLQRFRECELIHGRWAMLATLGALTVEGLTGI------TWQDAGKV 127
Query: 130 EYFASSS-----------TLFVIEFILFHYVEIRRWQDIKNPGSVNQDPIFKQYSLPPNE 178
E SS TL IE ++ Y+E +R ++ +
Sbjct: 128 ELIEGSSYLGQPLPFSMTTLIWIEVLVIGYIEFQRNAELDTEKRL--------------- 172
Query: 179 VGYPGGIFNPLNFAPTDEAK 198
YPGG F+PL A E K
Sbjct: 173 --YPGGTFDPLGLASDPEKK 190
Score = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 27/47 (57%)
Query: 73 FDPLGLAEDPENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIGIIN 119
FDPLGLA DPE AE+ ++R AM+G +G + T G +N
Sbjct: 178 FDPLGLASDPEKKPILQLAEIKHARLAMVGFLGFAVQAAVTGKGPLN 224
>pdb|1N2K|A Chain A, Crystal Structure Of A Covalent Intermediate Of Endogenous
Human Arylsulfatase A
pdb|1N2L|A Chain A, Crystal Structure Of A Covalent Intermediate Of Endogenous
Human Arylsulfatase A
pdb|1AUK|A Chain A, Human Arylsulfatase A
Length = 489
Score = 27.7 bits (60), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 21/43 (48%)
Query: 15 PCASKSRFLTGSSGKLNREVALKPVSSSASFKVEAKGEWLPGL 57
PC + + F + + L P+ A+ VEA+ WLPGL
Sbjct: 137 PCQNLTCFPPATPCDGGCDQGLVPIPLLANLSVEAQPPWLPGL 179
>pdb|1E2S|P Chain P, Crystal Structure Of An Arylsulfatase A Mutant C69a
Length = 489
Score = 27.7 bits (60), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 21/43 (48%)
Query: 15 PCASKSRFLTGSSGKLNREVALKPVSSSASFKVEAKGEWLPGL 57
PC + + F + + L P+ A+ VEA+ WLPGL
Sbjct: 137 PCQNLTCFPPATPCDGGCDQGLVPIPLLANLSVEAQPPWLPGL 179
>pdb|1E3C|P Chain P, Crystal Structure Of An Arylsulfatase A Mutant C69s Soaked
In Synthetic Substrate
Length = 489
Score = 27.3 bits (59), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 21/43 (48%)
Query: 15 PCASKSRFLTGSSGKLNREVALKPVSSSASFKVEAKGEWLPGL 57
PC + + F + + L P+ A+ VEA+ WLPGL
Sbjct: 137 PCQNLTCFPPATPCDGGCDQGLVPIPLLANLSVEAQPPWLPGL 179
>pdb|1E33|P Chain P, Crystal Structure Of An Arylsulfatase A Mutant P426l
Length = 489
Score = 27.3 bits (59), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 21/43 (48%)
Query: 15 PCASKSRFLTGSSGKLNREVALKPVSSSASFKVEAKGEWLPGL 57
PC + + F + + L P+ A+ VEA+ WLPGL
Sbjct: 137 PCQNLTCFPPATPCDGGCDQGLVPIPLLANLSVEAQPPWLPGL 179
>pdb|1E1Z|P Chain P, Crystal Structure Of An Arylsulfatase A Mutant C69s
Length = 489
Score = 27.3 bits (59), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 21/43 (48%)
Query: 15 PCASKSRFLTGSSGKLNREVALKPVSSSASFKVEAKGEWLPGL 57
PC + + F + + L P+ A+ VEA+ WLPGL
Sbjct: 137 PCQNLTCFPPATPCDGGCDQGLVPIPLLANLSVEAQPPWLPGL 179
>pdb|3OT5|A Chain A, 2.2 Angstrom Resolution Crystal Structure Of Putative
Udp-N- Acetylglucosamine 2-Epimerase From Listeria
Monocytogenes
pdb|3OT5|B Chain B, 2.2 Angstrom Resolution Crystal Structure Of Putative
Udp-N- Acetylglucosamine 2-Epimerase From Listeria
Monocytogenes
pdb|3OT5|C Chain C, 2.2 Angstrom Resolution Crystal Structure Of Putative
Udp-N- Acetylglucosamine 2-Epimerase From Listeria
Monocytogenes
pdb|3OT5|D Chain D, 2.2 Angstrom Resolution Crystal Structure Of Putative
Udp-N- Acetylglucosamine 2-Epimerase From Listeria
Monocytogenes
Length = 403
Score = 26.9 bits (58), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 24/42 (57%), Gaps = 1/42 (2%)
Query: 171 QYSLPPNEVGYP-GGIFNPLNFAPTDEAKEKELANGNNSAKL 211
+YS P E+ G+ ++F+PT +AKE LA G + A +
Sbjct: 153 KYSPFPEEMNRQLTGVMADIHFSPTKQAKENLLAEGKDPATI 194
>pdb|2V2B|A Chain A, L-rhamnulose-1-phosphate Aldolase From Escherichia Coli (
Mutant E117s-e192a-k248g-r253a-e254a)
Length = 274
Score = 26.9 bits (58), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 26/57 (45%), Gaps = 3/57 (5%)
Query: 15 PCASKSRFLTGSSGKLNREVALKPVSSSASFKVEAKG---EWLPGLASPTYLNGSLP 68
P + + F+ SGK R V L P ++ KV++ G L GL + SLP
Sbjct: 63 PLLANTPFIVTGSGKFFRNVQLDPAANLGIVKVDSDGAGYHILWGLTNEAVPTSSLP 119
>pdb|3RDK|A Chain A, Protein Crystal Structure Of Xylanase A1 Of Paenibacillus
Sp. Jdr-2
pdb|3RDK|B Chain B, Protein Crystal Structure Of Xylanase A1 Of Paenibacillus
Sp. Jdr-2
pdb|4E4P|A Chain A, Second Native Structure Of Xylanase A1 From Paenibacillus
Sp. Jdr-2
pdb|4E4P|B Chain B, Second Native Structure Of Xylanase A1 From Paenibacillus
Sp. Jdr-2
pdb|3RO8|A Chain A, Crystal Structure Of The Catalytic Domain Of Xyna1 From
Paenibacillus Sp. Jdr-2
pdb|3RO8|B Chain B, Crystal Structure Of The Catalytic Domain Of Xyna1 From
Paenibacillus Sp. Jdr-2
pdb|3RO8|C Chain C, Crystal Structure Of The Catalytic Domain Of Xyna1 From
Paenibacillus Sp. Jdr-2
pdb|3RO8|D Chain D, Crystal Structure Of The Catalytic Domain Of Xyna1 From
Paenibacillus Sp. Jdr-2
pdb|3RO8|E Chain E, Crystal Structure Of The Catalytic Domain Of Xyna1 From
Paenibacillus Sp. Jdr-2
pdb|3RO8|F Chain F, Crystal Structure Of The Catalytic Domain Of Xyna1 From
Paenibacillus Sp. Jdr-2
pdb|3RO8|G Chain G, Crystal Structure Of The Catalytic Domain Of Xyna1 From
Paenibacillus Sp. Jdr-2
pdb|3RO8|H Chain H, Crystal Structure Of The Catalytic Domain Of Xyna1 From
Paenibacillus Sp. Jdr-2
Length = 341
Score = 26.9 bits (58), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 36/79 (45%), Gaps = 14/79 (17%)
Query: 26 SSGKLNREVALKPVSSSASF--------KVEAKGEWLPGLA------SPTYLNGSLPGDN 71
++G + AL+P + +F KV A+G + G SP +LN +N
Sbjct: 42 TAGNAMKPDALQPTKGNFTFTAADAMIDKVLAEGMKMHGHVLVWHQQSPAWLNTKKDDNN 101
Query: 72 GFDPLGLAEDPENLKWYVQ 90
PLG E +NL+ ++Q
Sbjct: 102 NTVPLGRDEALDNLRTHIQ 120
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
0.316 0.134 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,015,340
Number of Sequences: 62578
Number of extensions: 309855
Number of successful extensions: 602
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 23
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 550
Number of HSP's gapped (non-prelim): 46
length of query: 215
length of database: 14,973,337
effective HSP length: 95
effective length of query: 120
effective length of database: 9,028,427
effective search space: 1083411240
effective search space used: 1083411240
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: 49 (23.5 bits)