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= 024579
(265 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 = 379 bits (972), Expect = e-105, Method: Compositional matrix adjust.
Identities = 183/230 (79%), Positives = 199/230 (86%), Gaps = 2/230 (0%)
Query: 36 TMRRTVKSAPQSIWYGPDRPKYLGPFSEQTPSYLTGEFPGDYGWDTAGLSADPETFAKNR 95
T ++ S S WYGPDR KYLGPFS ++PSYLTGEFPGDYGWDTAGLSADPETF+KNR
Sbjct: 5 TTKKVASSG--SPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFSKNR 62
Query: 96 ELEVIHSRWAMLGALGCVFPEILSKNGVKFGEAVWFKAGAQIFSEGGLDYLGNPNLIHAQ 155
ELEVIHSRWAMLGALGCVFPE+LS+NGVKFGEAVWFKAG+QIFSEGGLDYLGNP+L+HAQ
Sbjct: 63 ELEVIHSRWAMLGALGCVFPELLSRNGVKFGEAVWFKAGSQIFSEGGLDYLGNPSLVHAQ 122
Query: 156 SILAIWACQVVLMGFVEGYRIXXXXXXXXXXXXXXXXAFDPLGLADDPDQFAELKVKELK 215
SILAIWA QV+LMG VEGYRI +FDPLGLADDP+ FAELKVKELK
Sbjct: 123 SILAIWATQVILMGAVEGYRIAGGPLGEVVDPLYPGGSFDPLGLADDPEAFAELKVKELK 182
Query: 216 NGRLAMFSMFGFFVQAIVTGKGPIENLYDHIADPVANNAWAYATNFVPGK 265
NGRLAMFSMFGFFVQAIVTGKGP+ENL DH+ADPV NNAW+YATNFVPGK
Sbjct: 183 NGRLAMFSMFGFFVQAIVTGKGPLENLADHLADPVNNNAWSYATNFVPGK 232
>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 = 377 bits (969), Expect = e-105, Method: Compositional matrix adjust.
Identities = 182/227 (80%), Positives = 200/227 (88%), Gaps = 2/227 (0%)
Query: 39 RTVKSAPQSIWYGPDRPKYLGPFSEQTPSYLTGEFPGDYGWDTAGLSADPETFAKNRELE 98
+TV+S+ S WYGPDR KYLGPFS ++PSYLTGEFPGDYGWDTAGLSADPETFAKNRELE
Sbjct: 8 KTVQSS--SPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFAKNRELE 65
Query: 99 VIHSRWAMLGALGCVFPEILSKNGVKFGEAVWFKAGAQIFSEGGLDYLGNPNLIHAQSIL 158
VIH RWAMLGALGCVFPE+L++NGVKFGEAVWFKAG+QIFSEGGLDYLGNP+L+HAQSIL
Sbjct: 66 VIHCRWAMLGALGCVFPELLARNGVKFGEAVWFKAGSQIFSEGGLDYLGNPSLVHAQSIL 125
Query: 159 AIWACQVVLMGFVEGYRIXXXXXXXXXXXXXXXXAFDPLGLADDPDQFAELKVKELKNGR 218
AIWACQV+LMG VEGYRI +FDPLGLADDP+ FAELKVKE+KNGR
Sbjct: 126 AIWACQVILMGAVEGYRIAGGPLGEVVDPLYPGGSFDPLGLADDPEAFAELKVKEIKNGR 185
Query: 219 LAMFSMFGFFVQAIVTGKGPIENLYDHIADPVANNAWAYATNFVPGK 265
LAMFSMFGFFVQAIVTGKGP+ENL DH+ADPV NNAW +ATNFVPGK
Sbjct: 186 LAMFSMFGFFVQAIVTGKGPLENLADHLADPVNNNAWNFATNFVPGK 232
>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 = 375 bits (964), Expect = e-104, Method: Compositional matrix adjust.
Identities = 182/230 (79%), Positives = 198/230 (86%), Gaps = 2/230 (0%)
Query: 36 TMRRTVKSAPQSIWYGPDRPKYLGPFSEQTPSYLTGEFPGDYGWDTAGLSADPETFAKNR 95
T ++ S S WYGPDR KYLGPFS ++PSYLTGEFPGDYGWDTAGLSADPETF+KNR
Sbjct: 5 TTKKVASSG--SPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFSKNR 62
Query: 96 ELEVIHSRWAMLGALGCVFPEILSKNGVKFGEAVWFKAGAQIFSEGGLDYLGNPNLIHAQ 155
ELEVIHSRWAMLGALG VFPE+LS+NGVKFGEAVWFKAG+QIFSEGGLDYLGNP+L+HAQ
Sbjct: 63 ELEVIHSRWAMLGALGSVFPELLSRNGVKFGEAVWFKAGSQIFSEGGLDYLGNPSLVHAQ 122
Query: 156 SILAIWACQVVLMGFVEGYRIXXXXXXXXXXXXXXXXAFDPLGLADDPDQFAELKVKELK 215
SILAIWA QV+LMG VEGYRI +FDPLGLADDP+ FAELKVKELK
Sbjct: 123 SILAIWATQVILMGAVEGYRIAGGPLGEVVDPLYPGGSFDPLGLADDPEAFAELKVKELK 182
Query: 216 NGRLAMFSMFGFFVQAIVTGKGPIENLYDHIADPVANNAWAYATNFVPGK 265
NGRLAMFSMFGFFVQAIVTGKGP+ENL DH+ADPV NNAW+YATNFVPGK
Sbjct: 183 NGRLAMFSMFGFFVQAIVTGKGPLENLADHLADPVNNNAWSYATNFVPGK 232
>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 = 126 bits (316), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 87/228 (38%), Positives = 117/228 (51%), Gaps = 37/228 (16%)
Query: 51 GPDRPKYLGPFSEQTPSYLTGEFPGDYGWDTAGLSADPET---FAKNREL---EVIHSRW 104
G DRP + S+Q+ SYL G PGDYG+D GLS DPE F + + L E+I+ R+
Sbjct: 53 GSDRPLWFA--SKQSLSYLDGSLPGDYGFDPLGLS-DPEGTGGFIEPKWLAYGEIINGRY 109
Query: 105 AMLGALGCVFPEILSKNGVKFGEAV--WFKAGAQIFSEGGLDYLGNPNLIHAQSILAIWA 162
AMLGA+G + PEIL K G+ E WF+ G I G +Y + ++
Sbjct: 110 AMLGAVGAIAPEILGKAGLIPQETALPWFRTGF-IPPAGTYNYWADS--------YTLFV 160
Query: 163 CQVVLMGFVEGYR-----------------IXXXXXXXXXXXXXXXXAFDPLGLADDPDQ 205
++ LMGF E R + F+PLG D
Sbjct: 161 FEMALMGFAEHRRFQDWAKPGSMGKQYFLGLEKGLGGSGEPAYPGGPFFNPLGFGKDEKS 220
Query: 206 FAELKVKELKNGRLAMFSMFGFFVQAIVTGKGPIENLYDHIADPVANN 253
+LK+KE+KNGRLAM ++ G+FVQA+VTG GP +NL DH+ DPV NN
Sbjct: 221 LKDLKLKEVKNGRLAMLAILGYFVQALVTGVGPYQNLLDHLTDPVHNN 268
>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 = 79/193 (40%), Positives = 100/193 (51%), Gaps = 14/193 (7%)
Query: 63 EQTPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHSRWAMLGALGCVFPEILSKNG 122
E P+YL G PGD+G+D GL P + +E E+IH RWAML G + PE L
Sbjct: 52 EPRPAYLDGSAPGDFGFDPLGLGEVPANLERYKESELIHCRWAMLAVPGILVPEAL---- 107
Query: 123 VKFGEAVWFKAGAQIFSEGG-LDYLGNPNLIHAQSILAIWACQVVLMGFVEGYRIXXXXX 181
G W KA GG YLGNP + ++ I A + + + FVE R
Sbjct: 108 ---GYGNWVKAQEWAALPGGQATYLGNP--VPWGTLPTILAIEFLAIAFVEHQR---SME 159
Query: 182 XXXXXXXXXXXAFDPLGLADDPDQFAELKVKELKNGRLAMFSMFGFFV-QAIVTGKGPIE 240
AFDPLG + DP + ELKVKE+KNGRLA+ + GF V Q+ G GP+E
Sbjct: 160 KDPEKKKYPGGAFDPLGYSKDPKKLEELKVKEIKNGRLALLAFVGFCVQQSAYPGTGPLE 219
Query: 241 NLYDHIADPVANN 253
NL H+ADP NN
Sbjct: 220 NLATHLADPWHNN 232
>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 = 79/193 (40%), Positives = 100/193 (51%), Gaps = 14/193 (7%)
Query: 63 EQTPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHSRWAMLGALGCVFPEILSKNG 122
E P+YL G PGD+G+D GL P + +E E+IH RWAML G + PE L
Sbjct: 4 EPRPAYLDGSAPGDFGFDPLGLGEVPANLERYKESELIHCRWAMLAVPGILVPEAL---- 59
Query: 123 VKFGEAVWFKAGAQIFSEGG-LDYLGNPNLIHAQSILAIWACQVVLMGFVEGYRIXXXXX 181
G W KA GG YLGNP + ++ I A + + + FVE R
Sbjct: 60 ---GYGNWVKAQEWAALPGGQATYLGNP--VPWGTLPTILAIEFLAIAFVEHQR---SME 111
Query: 182 XXXXXXXXXXXAFDPLGLADDPDQFAELKVKELKNGRLAMFSMFGFFV-QAIVTGKGPIE 240
AFDPLG + DP + ELKVKE+KNGRLA+ + GF V Q+ G GP+E
Sbjct: 112 KDPEKKKYPGGAFDPLGYSKDPKKLEELKVKEIKNGRLALLAFVGFCVQQSAYPGTGPLE 171
Query: 241 NLYDHIADPVANN 253
NL H+ADP NN
Sbjct: 172 NLATHLADPWHNN 184
>pdb|2O01|2 Chain 2, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 186
Score = 119 bits (299), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 71/200 (35%), Positives = 98/200 (49%), Gaps = 32/200 (16%)
Query: 66 PSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHSRWAMLGALGCVFPEILSKNGVKF 125
P +L G PGD+G+D GLS+DPE+ N + E++HSRWAMLGA G PE L+K G+
Sbjct: 1 PEWLDGSLPGDFGFDPLGLSSDPESLRWNVQAELVHSRWAMLGAAGIFIPEFLTKLGI-L 59
Query: 126 GEAVWFKAGAQIFSEGGLDYLGNPNLIHAQSILAIWACQVVLMGFVEGYR---------- 175
W+ AG Q + ++ ++V +G+ EG R
Sbjct: 60 NTPSWYTAGEQEY---------------FTDTTTLFIVELVFIGWAEGRRWADILNPGCV 104
Query: 176 -----IXXXXXXXXXXXXXXXXAFDPLGLAD-DPDQFAELKVKELKNGRLAMFSMFGFFV 229
FDPLG P + EL+ KE+KNGRLAM ++ G +
Sbjct: 105 NTDPIFPNNKLTGTDVGYPGGLWFDPLGWGSASPQKLKELRTKEIKNGRLAMLAVMGAWF 164
Query: 230 QAIVTGKGPIENLYDHIADP 249
Q I TG GPI+NL+ H+ADP
Sbjct: 165 QHIYTGTGPIDNLFAHLADP 184
>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 = 119 bits (297), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 76/218 (34%), Positives = 105/218 (48%), Gaps = 35/218 (16%)
Query: 52 PDRPKYLGPFSEQTPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHSRWAMLGALG 111
PDRP + P +L G PGD+G+D GL +DPE+ N + E++HSRWAMLGA G
Sbjct: 62 PDRPLWFP--GSTPPPWLDGSLPGDFGFDPLGLGSDPESLRWNVQAELVHSRWAMLGAAG 119
Query: 112 CVFPEILSKNGVKFGEAVWFKAGAQIFSEGGLDYLGNPNLIHAQSILAIWACQVVLMGFV 171
PE L+K G+ W+ AG Q +Y + ++ ++V +G+
Sbjct: 120 IFIPEFLTKLGI-LNTPSWYTAGEQ-------EYFTD--------TTTLFIVELVFIGWA 163
Query: 172 EGYR---------------IXXXXXXXXXXXXXXXXAFDPLGLAD-DPDQFAELKVKELK 215
EG R FDPLG P + EL+ KE+K
Sbjct: 164 EGRRWADILNPGCVNTDPIFPNNKLTGTDVGYPGGLWFDPLGWGSASPQKLKELRTKEIK 223
Query: 216 NGRLAMFSMFGFFVQAIVTGKGPIENLY-DHIADPVAN 252
NGRLAM ++ G + Q I TG GPI+NL+ H+ADP A
Sbjct: 224 NGRLAMLAVMGAWFQHIYTGTGPIDNLFAAHLADPHAT 261
>pdb|3LW5|1 Chain 1, Improved Model Of Plant Photosystem I
Length = 170
Score = 112 bits (280), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 72/178 (40%), Positives = 92/178 (51%), Gaps = 14/178 (7%)
Query: 74 PGDYGWDTAGLSADPETFAKNRELEVIHSRWAMLGALGCVFPEILSKNGVKFGEAVWFKA 133
PGD+G+D GL P + +E E+IH RWAML G + PE L G W KA
Sbjct: 3 PGDFGFDPLGLGEVPANLERYKESELIHCRWAMLAVPGILVPEAL-------GYGNWVKA 55
Query: 134 GAQIFSEGG-LDYLGNPNLIHAQSILAIWACQVVLMGFVEGYRIXXXXXXXXXXXXXXXX 192
GG YLGNP + ++ I A + + + FVE R
Sbjct: 56 QEWAALPGGQATYLGNP--VPWGTLPTILAIEFLAIAFVEHQR---SMEKDPEKKKYPGG 110
Query: 193 AFDPLGLADDPDQFAELKVKELKNGRLAMFSMFGFFV-QAIVTGKGPIENLYDHIADP 249
AFDPLG + DP + ELKVKE+KNGRLA+ + GF V Q+ G GP+ENL H+ADP
Sbjct: 111 AFDPLGYSKDPKKLEELKVKEIKNGRLALLAFVGFCVQQSAYPGTGPLENLATHLADP 168
>pdb|3LW5|2 Chain 2, Improved Model Of Plant Photosystem I
Length = 176
Score = 97.1 bits (240), Expect = 8e-21, Method: Compositional matrix adjust.
Identities = 61/180 (33%), Positives = 86/180 (47%), Gaps = 32/180 (17%)
Query: 86 ADPETFAKNRELEVIHSRWAMLGALGCVFPEILSKNGVKFGEAVWFKAGAQIFSEGGLDY 145
+DPE+ N + E++HSRWAMLGA G PE L+K G+ W+ AG Q +Y
Sbjct: 1 SDPESLRWNVQAELVHSRWAMLGAAGIFIPEFLTKLGI-LNTPSWYTAGEQ-------EY 52
Query: 146 LGNPNLIHAQSILAIWACQVVLMGFVEGYR---------------IXXXXXXXXXXXXXX 190
+ ++ ++V +G+ EG R
Sbjct: 53 FTDTT--------TLFIVELVFIGWAEGRRWADILNPGCVNTDPIFPNNKLTGTDVGYPG 104
Query: 191 XXAFDPLGLAD-DPDQFAELKVKELKNGRLAMFSMFGFFVQAIVTGKGPIENLYDHIADP 249
FDPLG P + EL+ KE+KNGRLAM ++ G + Q I TG GPI+NL+ H+ADP
Sbjct: 105 GLWFDPLGWGSASPQKLKELRTKEIKNGRLAMLAVMGAWFQHIYTGTGPIDNLFAHLADP 164
Score = 28.5 bits (62), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 1/51 (1%)
Query: 73 FPGDYGWDTAGL-SADPETFAKNRELEVIHSRWAMLGALGCVFPEILSKNG 122
+PG +D G SA P+ + R E+ + R AML +G F I + G
Sbjct: 102 YPGGLWFDPLGWGSASPQKLKELRTKEIKNGRLAMLAVMGAWFQHIYTGTG 152
>pdb|3PL9|A Chain A, Crystal Structure Of Spinach Minor Light-Harvesting
Complex Cp29 At 2.80 Angstrom Resolution
Length = 243
Score = 96.7 bits (239), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 79/247 (31%), Positives = 105/247 (42%), Gaps = 59/247 (23%)
Query: 50 YGPDRPKYLGPFSEQTPSYLTGEFPGDYGWDTAGLSADPE-----------TFAKN---- 94
+ DRP + + P YL G GDYG+D GL E AKN
Sbjct: 7 FSTDRPLWYP--GAKAPEYLDGSLVGDYGFDPFGLGKPAEYLQYDYDGLDQNLAKNLAGD 64
Query: 95 ----------------------------RELEVIHSRWAMLGALGCVFPEILSKNGVKFG 126
RE E+IH RWAML LG + E L+ G+
Sbjct: 65 IIGTRTESADVKSTSLQPYSEVFGLQRFRECELIHGRWAMLATLGALTVEGLT--GI--- 119
Query: 127 EAVWFKAGAQIFSEGGLDYLGNPNLIHAQSILAIWACQVVLMGFVEGYRIXXXXXXXXXX 186
W AG EG YLG P ++ IW +V+++G++E R
Sbjct: 120 --TWQDAGKVELIEGS-SYLGQPLPFSMTTL--IW-IEVLVIGYIEFQR---NAELDTEK 170
Query: 187 XXXXXXAFDPLGLADDPDQFAELKVKELKNGRLAMFSMFGFFVQAIVTGKGPIENLYDHI 246
FDPLGLA DP++ L++ E+K+ RLAM GF VQA VTGKGP+ N H+
Sbjct: 171 RLYPGGTFDPLGLASDPEKKPILQLAEIKHARLAMVGFLGFAVQAAVTGKGPLNNWVTHL 230
Query: 247 ADPVANN 253
+DP+
Sbjct: 231 SDPLHTT 237
>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 = 92.4 bits (228), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 64/193 (33%), Positives = 90/193 (46%), Gaps = 17/193 (8%)
Query: 65 TPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHSRWAMLGALGCVFPEILSKNGVK 124
+P YLTG PGD G+D GL+ DPE + E+++ RWAMLG G + PE+ + G+
Sbjct: 62 SPGYLTGSLPGDNGFDPLGLAEDPENLRWFVQAELVNGRWAMLGVAGMLLPEVFTSIGI- 120
Query: 125 FGEAVWFKAGAQIFSEGGLDYLGNPNLIHAQSILAIWA-----CQVVLMGFVEGYRIXXX 179
W+ AG + + + + L + IL+ + + G V I
Sbjct: 121 INVPKWYAAGKEEY------FASSSTLFVIEFILSHYVEIRRWQDIKNPGSVNQDPIFKQ 174
Query: 180 XXXXXXXXXXXXXAFDPLGLADDPDQFAELKVKELKNGRLAMFSMFGFFVQAIVTGKGPI 239
F+PL A E K KE+ NGRL M + GF +Q VTGKGP
Sbjct: 175 YSLPAGEVGYPGGIFNPLNFAPT----LEAKEKEIANGRL-MLAFLGFIIQHNVTGKGPF 229
Query: 240 ENLYDHIADPVAN 252
+NL HI+DP N
Sbjct: 230 DNLLQHISDPWHN 242
>pdb|2O01|3 Chain 3, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 165
Score = 87.0 bits (214), Expect = 9e-18, Method: Compositional matrix adjust.
Identities = 58/169 (34%), Positives = 80/169 (47%), Gaps = 28/169 (16%)
Query: 98 EVIHSRWAMLGALGCVFPEILSKNGVKFGEAV--WFKAGAQIFSEGGLDYLGNPNLIHAQ 155
E+I+ R+AMLGA G + PEIL K G+ E WF+ G I G Y +
Sbjct: 6 EIINGRFAMLGAAGAIAPEILGKAGLIPAETALPWFQTGV-IPPAGTYTYWADN------ 58
Query: 156 SILAIWACQVVLMGFVEGYRIXXXXXXXXXXXXXXXXA-----------------FDPLG 198
++ ++ LMGF E R+ F+PLG
Sbjct: 59 --YTLFVLEMALMGFAEHRRLQDWYNPGSMGKQYFLGLEKGLAGSGNPAYPGGPFFNPLG 116
Query: 199 LADDPDQFAELKVKELKNGRLAMFSMFGFFVQAIVTGKGPIENLYDHIA 247
D ELK+KE+KNGRLAM ++ G+F+Q +VTG GP +NL DH+A
Sbjct: 117 FGKDEKSLKELKLKEVKNGRLAMLAILGYFIQGLVTGVGPYQNLLDHLA 165
>pdb|3LW5|3 Chain 3, Improved Model Of Plant Photosystem I
Length = 172
Score = 77.0 bits (188), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 60/181 (33%), Positives = 84/181 (46%), Gaps = 34/181 (18%)
Query: 86 ADPET---FAKNREL---EVIHSRWAMLGALGCVFPEILSKNGVKFGEAV--WFKAGAQI 137
+DPE F + R L EVI+ R+AMLGA+G + PE L K G+ E WF+ G I
Sbjct: 1 SDPEGTGGFIEPRWLAYGEVINGRFAMLGAVGAIAPEYLGKVGLIPQETALAWFQTGV-I 59
Query: 138 FSEGGLDYLGNPNLIHAQSILAIWACQVVLMGFVEGYR-----------------IXXXX 180
G +Y + ++ ++ LMGF E R +
Sbjct: 60 PPAGTYNYWADN--------YTLFVLEMALMGFAEHRRFQDWAKPGSMGKQYFLGLEKGF 111
Query: 181 XXXXXXXXXXXXAFDPLGLADDPDQFAELKVKELKNGRLAMFSMFGFFVQAIVTGKGPIE 240
F+PLG D ELK+KE+KNGRLAM ++ G+F+Q +VTG GP +
Sbjct: 112 GGSGNPAYPGGPFFNPLGFGKDEKSLKELKLKEVKNGRLAMLAILGYFIQGLVTGVGPYQ 171
Query: 241 N 241
N
Sbjct: 172 N 172
>pdb|2O01|4 Chain 4, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 165
Score = 70.9 bits (172), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 52/179 (29%), Positives = 76/179 (42%), Gaps = 34/179 (18%)
Query: 88 PETFAKNRELEVIHSRWAMLGALGCVFPEILSKNGVKFGEAVWFKAGAQIFSEGGLDYLG 147
PE + E+++ RWAMLG G + PE+ + G+ W+ AG + +Y
Sbjct: 1 PENLRWFVQAELVNGRWAMLGVAGMLLPEVFTSIGI-INVPKWYAAGKE-------EYFA 52
Query: 148 NPNLIHAQSILAIWACQVVLMGFVEGYR--------------IXXXXXXXXXXXXXXXXA 193
+ + ++ + +L +VE R I
Sbjct: 53 SSS--------TLFVIEFILSHYVEIRRWQDIKNPGSVNQDPIFKQYSLPAGEVGYPGGI 104
Query: 194 FDPLGLADDPDQFAELKVKELKNGRLAMFSMFGFFVQAIVTGKGPIENLYDHIADPVAN 252
F+PL A E K KE+ NGRLAM + GF +Q VTGKGP +NL HI+DP N
Sbjct: 105 FNPLNFAPT----LEAKEKEIANGRLAMLAFLGFIIQHNVTGKGPFDNLLQHISDPWHN 159
>pdb|3LW5|4 Chain 4, Improved Model Of Plant Photosystem I
Length = 166
Score = 68.6 bits (166), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 53/183 (28%), Positives = 78/183 (42%), Gaps = 35/183 (19%)
Query: 84 LSADPETFAKNRELEVIHSRWAMLGALGCVFPEILSKNGVKFGEAVWFKAGAQIFSEGGL 143
L+ DPE + E+++ RWAMLG G + PE+ + G+ W+ AG +
Sbjct: 1 LAEDPENLRWFVQAELVNGRWAMLGVAGMLLPEVFTSIGI-INVPKWYAAGKE------- 52
Query: 144 DYLGNPNLIHAQSILAIWACQVVLMGFVEGYR--------------IXXXXXXXXXXXXX 189
+Y + + ++ + +L +VE R I
Sbjct: 53 EYFASSS--------TLFVIEFILSHYVEIRRWQDIKNPGSVNQDPIFKQYSLPAGEVGY 104
Query: 190 XXXAFDPLGLADDPDQFAELKVKELKNGRLAMFSMFGFFVQAIVTGKGPIENLYDHIADP 249
F+PL A E K KE+ NGRL M + GF +Q VTGKGP +NL HI+DP
Sbjct: 105 PGGIFNPLNFAPT----LEAKEKEIANGRL-MLAFLGFIIQHNVTGKGPFDNLLQHISDP 159
Query: 250 VAN 252
N
Sbjct: 160 WHN 162
>pdb|2ZUE|A Chain A, Crystal Structure Of Pyrococcus Horikoshii Arginyl-Trna
Synthetase Complexed With Trna(Arg) And An Atp Analog
(Anp)
pdb|2ZUF|A Chain A, Crystal Structure Of Pyrococcus Horikoshii Arginyl-Trna
Synthetase Complexed With Trna(Arg)
Length = 629
Score = 30.4 bits (67), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 25/93 (26%), Positives = 41/93 (44%), Gaps = 5/93 (5%)
Query: 80 DTAGLSADPETFAKNRELEVIHSRWAMLGALGCVFPEILSKNG--VKFGEAVWF-KAGAQ 136
+ G+ DPET KN + + R L + FP I+ + G VK WF A
Sbjct: 522 EEEGIKVDPETLFKNADFTKLSERERELVIMLSKFPRIVEQAGKDVKPHLIAWFANELAS 581
Query: 137 IFSEGGLDY--LGNPNLIHAQSILAIWACQVVL 167
+F++ +D+ L + +L + A + VL
Sbjct: 582 LFNKFYMDHPVLKAEEGVREARLLLVMAVEQVL 614
>pdb|2VIF|A Chain A, Crystal Structure Of Socs6 Sh2 Domain In Complex With A
C-Kit Phosphopeptide
Length = 141
Score = 28.9 bits (63), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 24/52 (46%), Gaps = 6/52 (11%)
Query: 213 ELKNGRLAMFSMFGFFVQAIVTGKGPIENLYDHIADPVANNAWAYATNFVPG 264
E NGR F F+ Q V G I +L +H N A+ Y+ + +PG
Sbjct: 76 EHSNGR------FSFYEQPDVEGHTSIVDLIEHSIGDSENGAFCYSRSRLPG 121
>pdb|3H4J|B Chain B, Crystal Structure Of Pombe Ampk Kdaid Fragment
pdb|3H4J|A Chain A, Crystal Structure Of Pombe Ampk Kdaid Fragment
Length = 336
Score = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 28/65 (43%), Gaps = 4/65 (6%)
Query: 23 FVRKVGVADGGRITMRRTVKSAPQSIWYGPDRPKYLGPFSEQTPSYLTGEFPGDYGWDTA 82
+R++ VAD + R T++ + W+ + P YL P E SY G +
Sbjct: 238 LIRRMIVADPMQ---RITIQEIRRDPWFNVNLPDYLRPMEEVQGSYADSRIVSKLG-EAM 293
Query: 83 GLSAD 87
G S D
Sbjct: 294 GFSED 298
>pdb|3V47|C Chain C, Crystal Structure Of The N-Tetminal Fragment Of Zebrafish
Tlr5 In Complex With Salmonella Flagellin
pdb|3V47|D Chain D, Crystal Structure Of The N-Tetminal Fragment Of Zebrafish
Tlr5 In Complex With Salmonella Flagellin
Length = 425
Score = 28.1 bits (61), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 28/85 (32%), Positives = 34/85 (40%), Gaps = 10/85 (11%)
Query: 7 QQSAFAGQTALRQSNEFVRKVGVADGGRITM---RRTVKSAPQSIWYGPDRPKYLGPFSE 63
Q+ F G L Q N+ +VG DG IT+ + VKS G D GP E
Sbjct: 87 NQTQFNGVKVLSQDNQMKIQVGANDGETITIDLQKIDVKS------LGLDGFNVNGP-KE 139
Query: 64 QTPSYLTGEFPGDYGWDTAGLSADP 88
T L F G+DT AD
Sbjct: 140 ATVGDLKSSFKNVTGYDTYAAGADK 164
>pdb|2R5N|A Chain A, Crystal Structure Of Transketolase From Escherichia Coli
In Noncovalent Complex With Acceptor Aldose Ribose
5-Phosphate
pdb|2R5N|B Chain B, Crystal Structure Of Transketolase From Escherichia Coli
In Noncovalent Complex With Acceptor Aldose Ribose
5-Phosphate
pdb|2R8O|A Chain A, Transketolase From E. Coli In Complex With Substrate D-
Xylulose-5-Phosphate
pdb|2R8O|B Chain B, Transketolase From E. Coli In Complex With Substrate D-
Xylulose-5-Phosphate
pdb|2R8P|A Chain A, Transketolase From E. Coli In Complex With Substrate D-
Fructose-6-Phosphate
pdb|2R8P|B Chain B, Transketolase From E. Coli In Complex With Substrate D-
Fructose-6-Phosphate
Length = 669
Score = 27.3 bits (59), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 32/52 (61%), Gaps = 3/52 (5%)
Query: 19 QSNEFVRKVGVADGGRITMRRTVKSAPQSIWYGPDRPKYLGPFSEQTPSYLT 70
++ EF+ K+ A+ +I R+ ++A ++ +GP P++LG ++ PS LT
Sbjct: 340 KAKEFIAKLQ-ANPAKIASRKASQNAIEA--FGPLLPEFLGGSADLAPSNLT 388
>pdb|1QGD|A Chain A, Transketolase From Escherichia Coli
pdb|1QGD|B Chain B, Transketolase From Escherichia Coli
Length = 662
Score = 27.3 bits (59), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 32/52 (61%), Gaps = 3/52 (5%)
Query: 19 QSNEFVRKVGVADGGRITMRRTVKSAPQSIWYGPDRPKYLGPFSEQTPSYLT 70
++ EF+ K+ A+ +I R+ ++A ++ +GP P++LG ++ PS LT
Sbjct: 339 KAKEFIAKLQ-ANPAKIASRKASQNAIEA--FGPLLPEFLGGSADLAPSNLT 387
>pdb|2Y94|A Chain A, Structure Of An Active Form Of Mammalian Ampk
Length = 476
Score = 27.3 bits (59), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 17/31 (54%), Gaps = 3/31 (9%)
Query: 38 RRTVKSAPQSIWYGPDRPKYLGPFSEQTPSY 68
R T+K + W+ D PKYL P + PSY
Sbjct: 258 RATIKDIREHEWFKQDLPKYLFP---EDPSY 285
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 0.138 0.429
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,189,770
Number of Sequences: 62578
Number of extensions: 338021
Number of successful extensions: 803
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 744
Number of HSP's gapped (non-prelim): 46
length of query: 265
length of database: 14,973,337
effective HSP length: 97
effective length of query: 168
effective length of database: 8,903,271
effective search space: 1495749528
effective search space used: 1495749528
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)