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= 023899
(275 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 447 bits (1149), Expect = e-126, Method: Compositional matrix adjust.
Identities = 220/260 (84%), Positives = 231/260 (88%)
Query: 16 ETARQILGARSAQSPTGSSRKGSFVVRAASTPPVKQGADRPLWFASKQSLSYLDGSLPGD 75
E ARQ LG RS QSP G SRK SF+V+AA+TPPVKQG+DRPLWFASKQSLSYLDGSLPGD
Sbjct: 17 EAARQSLGPRSLQSPFGFSRKASFLVKAAATPPVKQGSDRPLWFASKQSLSYLDGSLPGD 76
Query: 76 YGFDPLGLSDPEGTGGFIEPKWLAYGEVINGRYAMLGAVGAIAPEILGKAGLIPQETALA 135
YGFDPLGLSDPEGTGGFIEPKWLAYGE+INGRYAMLGAVGAIAPEILGKAGLIPQETAL
Sbjct: 77 YGFDPLGLSDPEGTGGFIEPKWLAYGEIINGRYAMLGAVGAIAPEILGKAGLIPQETALP 136
Query: 136 WFQTGVIPPAGTYNYWADPYTLFVLEMALMGFAEHRRFQDWANPGSMGRQYFLGFEKYLG 195
WF+TG IPPAGTYNYWAD YTLFV EMALMGFAEHRRFQDWA PGSMG+QYFLG EK LG
Sbjct: 137 WFRTGFIPPAGTYNYWADSYTLFVFEMALMGFAEHRRFQDWAKPGSMGKQYFLGLEKGLG 196
Query: 196 GSGDPAYXXXXXXXXXXXXKDEKSMKDFKLKEVKNGRLAMLAILGYFVQGLVTGVGPYQN 255
GSG+PAY KDEKS+KD KLKEVKNGRLAMLAILGYFVQ LVTGVGPYQN
Sbjct: 197 GSGEPAYPGGPFFNPLGFGKDEKSLKDLKLKEVKNGRLAMLAILGYFVQALVTGVGPYQN 256
Query: 256 LLDHLADPVNNNVLTSLKFH 275
LLDHL DPV+NN+LTSLKFH
Sbjct: 257 LLDHLTDPVHNNILTSLKFH 276
>pdb|3LW5|3 Chain 3, Improved Model Of Plant Photosystem I
Length = 172
Score = 293 bits (749), Expect = 9e-80, Method: Compositional matrix adjust.
Identities = 145/172 (84%), Positives = 152/172 (88%)
Query: 84 SDPEGTGGFIEPKWLAYGEVINGRYAMLGAVGAIAPEILGKAGLIPQETALAWFQTGVIP 143
SDPEGTGGFIEP+WLAYGEVINGR+AMLGAVGAIAPE LGK GLIPQETALAWFQTGVIP
Sbjct: 1 SDPEGTGGFIEPRWLAYGEVINGRFAMLGAVGAIAPEYLGKVGLIPQETALAWFQTGVIP 60
Query: 144 PAGTYNYWADPYTLFVLEMALMGFAEHRRFQDWANPGSMGRQYFLGFEKYLGGSGDPAYX 203
PAGTYNYWAD YTLFVLEMALMGFAEHRRFQDWA PGSMG+QYFLG EK GGSG+PAY
Sbjct: 61 PAGTYNYWADNYTLFVLEMALMGFAEHRRFQDWAKPGSMGKQYFLGLEKGFGGSGNPAYP 120
Query: 204 XXXXXXXXXXXKDEKSMKDFKLKEVKNGRLAMLAILGYFVQGLVTGVGPYQN 255
KDEKS+K+ KLKEVKNGRLAMLAILGYF+QGLVTGVGPYQN
Sbjct: 121 GGPFFNPLGFGKDEKSLKELKLKEVKNGRLAMLAILGYFIQGLVTGVGPYQN 172
>pdb|2O01|3 Chain 3, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 165
Score = 271 bits (694), Expect = 2e-73, Method: Compositional matrix adjust.
Identities = 135/165 (81%), Positives = 142/165 (86%)
Query: 97 WLAYGEVINGRYAMLGAVGAIAPEILGKAGLIPQETALAWFQTGVIPPAGTYNYWADPYT 156
WLAYGE+INGR+AMLGA GAIAPEILGKAGLIP ETAL WFQTGVIPPAGTY YWAD YT
Sbjct: 1 WLAYGEIINGRFAMLGAAGAIAPEILGKAGLIPAETALPWFQTGVIPPAGTYTYWADNYT 60
Query: 157 LFVLEMALMGFAEHRRFQDWANPGSMGRQYFLGFEKYLGGSGDPAYXXXXXXXXXXXXKD 216
LFVLEMALMGFAEHRR QDW NPGSMG+QYFLG EK L GSG+PAY KD
Sbjct: 61 LFVLEMALMGFAEHRRLQDWYNPGSMGKQYFLGLEKGLAGSGNPAYPGGPFFNPLGFGKD 120
Query: 217 EKSMKDFKLKEVKNGRLAMLAILGYFVQGLVTGVGPYQNLLDHLA 261
EKS+K+ KLKEVKNGRLAMLAILGYF+QGLVTGVGPYQNLLDHLA
Sbjct: 121 EKSLKELKLKEVKNGRLAMLAILGYFIQGLVTGVGPYQNLLDHLA 165
>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 = 145 bits (366), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 96/251 (38%), Positives = 129/251 (51%), Gaps = 25/251 (9%)
Query: 17 TARQILGAR-SAQSPTGSSRKGSFVVRAASTPPVKQGADRPLWFASKQSLSYLDGSLPGD 75
T++ LG + S T S + VR+ ST DRPLWF +LDGSLPGD
Sbjct: 29 TSKAFLGRKLKVNSSTASPSR----VRSTSTVCTVAEPDRPLWFPGSTPPPWLDGSLPGD 84
Query: 76 YGFDPLGL-SDPEGTGGFIEPKWLAYGEVINGRYAMLGAVGAIAPEILGKAGLIPQETAL 134
+GFDPLGL SDPE +W E+++ R+AMLGA G PE L K G++
Sbjct: 85 FGFDPLGLGSDPESL------RWNVQAELVHSRWAMLGAAGIFIPEFLTKLGIL---NTP 135
Query: 135 AWFQTGVIPPAGTYNYWADPYTLFVLEMALMGFAEHRRFQDWANPGSMGRQYFLGFEKYL 194
+W+ AG Y+ D TLF++E+ +G+AE RR+ D NPG + K
Sbjct: 136 SWYT------AGEQEYFTDTTTLFIVELVFIGWAEGRRWADILNPGCVNTDPIFPNNKLT 189
Query: 195 GGSGDPAYX-XXXXXXXXXXXKDEKSMKDFKLKEVKNGRLAMLAILGYFVQGLVTGVGPY 253
G D Y + +K+ + KE+KNGRLAMLA++G + Q + TG GP
Sbjct: 190 G--TDVGYPGGLWFDPLGWGSASPQKLKELRTKEIKNGRLAMLAVMGAWFQHIYTGTGPI 247
Query: 254 QNLL-DHLADP 263
NL HLADP
Sbjct: 248 DNLFAAHLADP 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 = 135 bits (341), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 95/247 (38%), Positives = 125/247 (50%), Gaps = 34/247 (13%)
Query: 27 AQSPTGSSRKGSFVVRAASTPPVKQGADRPLWFASKQSLSYLDGSLPGDYGFDPLGLS-D 85
A P G S SF V A K+G W S YL GSLPGD GFDPLGL+ D
Sbjct: 35 AFRPVGCSPSASFKVEA------KKGE----WLPGLASPGYLTGSLPGDNGFDPLGLAED 84
Query: 86 PEGTGGFIEPKWLAYGEVINGRYAMLGAVGAIAPEILGKAGLIPQETALAWFQTGVIPPA 145
PE +W E++NGR+AMLG G + PE+ G+I W+ A
Sbjct: 85 PENL------RWFVQAELVNGRWAMLGVAGMLLPEVFTSIGII---NVPKWYA------A 129
Query: 146 GTYNYWADPYTLFVLEMALMGFAEHRRFQDWANPGSMGRQYFLGFEKYLGGSGDPAYXXX 205
G Y+A TLFV+E L + E RR+QD NPGS+ + F++Y +G+ Y
Sbjct: 130 GKEEYFASSSTLFVIEFILSHYVEIRRWQDIKNPGSVNQDPI--FKQYSLPAGEVGYPGG 187
Query: 206 XXXXXXXXXKDEKSMKDFKLKEVKNGRLAMLAILGYFVQGLVTGVGPYQNLLDHLADPVN 265
E K KE+ NGRL MLA LG+ +Q VTG GP+ NLL H++DP +
Sbjct: 188 IFNPLNFAPTLEA-----KEKEIANGRL-MLAFLGFIIQHNVTGKGPFDNLLQHISDPWH 241
Query: 266 NNVLTSL 272
N ++ +L
Sbjct: 242 NTIVQTL 248
>pdb|2O01|2 Chain 2, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 186
Score = 130 bits (327), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 80/200 (40%), Positives = 108/200 (54%), Gaps = 19/200 (9%)
Query: 66 SYLDGSLPGDYGFDPLGLS-DPEGTGGFIEPKWLAYGEVINGRYAMLGAVGAIAPEILGK 124
+LDGSLPGD+GFDPLGLS DPE +W E+++ R+AMLGA G PE L K
Sbjct: 2 EWLDGSLPGDFGFDPLGLSSDPESL------RWNVQAELVHSRWAMLGAAGIFIPEFLTK 55
Query: 125 AGLIPQETALAWFQTGVIPPAGTYNYWADPYTLFVLEMALMGFAEHRRFQDWANPGSMGR 184
G++ +W+ AG Y+ D TLF++E+ +G+AE RR+ D NPG +
Sbjct: 56 LGIL---NTPSWYT------AGEQEYFTDTTTLFIVELVFIGWAEGRRWADILNPGCVNT 106
Query: 185 QYFLGFEKYLGGSGDPAYXXXXXXX-XXXXXKDEKSMKDFKLKEVKNGRLAMLAILGYFV 243
K G D Y + +K+ + KE+KNGRLAMLA++G +
Sbjct: 107 DPIFPNNKLTGT--DVGYPGGLWFDPLGWGSASPQKLKELRTKEIKNGRLAMLAVMGAWF 164
Query: 244 QGLVTGVGPYQNLLDHLADP 263
Q + TG GP NL HLADP
Sbjct: 165 QHIYTGTGPIDNLFAHLADP 184
Score = 29.3 bits (64), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 24/67 (35%), Positives = 29/67 (43%), Gaps = 4/67 (5%)
Query: 62 KQSLSYLDGSLPGDYGFDPLGLSDPEGTGGFIEPKWLAYGEVINGRYAMLGAVGAIAPEI 121
L+ D PG FDPLG G+ + K L E+ NGR AML +GA I
Sbjct: 112 NNKLTGTDVGYPGGLWFDPLGW----GSASPQKLKELRTKEIKNGRLAMLAVMGAWFQHI 167
Query: 122 LGKAGLI 128
G I
Sbjct: 168 YTGTGPI 174
>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 = 121 bits (304), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 94/245 (38%), Positives = 129/245 (52%), Gaps = 37/245 (15%)
Query: 35 RKGSFVVRAASTPPVKQGADRPLWFA--SKQSLSYLDGSLPGDYGFDPLGLS-DPEGTGG 91
RK + + AS+ G DR + S +S SYL G PGDYG+D GLS DPE
Sbjct: 1 RKSATTKKVASSGSPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPET--- 57
Query: 92 FIEPKWLAYGEVINGRYAMLGAVGAIAPEILGKAGLIPQETALAWFQTGV-IPPAGTYNY 150
F + + L EVI+ R+AMLGA+G++ PE+L + G+ E WF+ G I G +Y
Sbjct: 58 FSKNREL---EVIHSRWAMLGALGSVFPELLSRNGVKFGEAV--WFKAGSQIFSEGGLDY 112
Query: 151 WADP--------YTLFVLEMALMGFAEHRRFQDWANPGSMGRQYFLGFEKYLGGSGDPAY 202
+P ++ ++ LMG E R G +G + Y GGS DP
Sbjct: 113 LGNPSLVHAQSILAIWATQVILMGAVEGYRIAG----GPLGE---VVDPLYPGGSFDP-- 163
Query: 203 XXXXXXXXXXXXKDEKSMKDFKLKEVKNGRLAMLAILGYFVQGLVTGVGPYQNLLDHLAD 262
D ++ + K+KE+KNGRLAM ++ G+FVQ +VTG GP +NL DHLAD
Sbjct: 164 --------LGLADDPEAFAELKVKELKNGRLAMFSMFGFFVQAIVTGKGPLENLADHLAD 215
Query: 263 PVNNN 267
PVNNN
Sbjct: 216 PVNNN 220
>pdb|1VCR|A Chain A, An Icosahedral Assembly Of Light-Harvesting Chlorophyll AB
Protein Complex From Pea Thylakoid Membranes
Length = 232
Score = 121 bits (304), Expect = 4e-28, Method: Compositional matrix adjust.
Identities = 94/245 (38%), Positives = 128/245 (52%), Gaps = 37/245 (15%)
Query: 35 RKGSFVVRAASTPPVKQGADRPLWFA--SKQSLSYLDGSLPGDYGFDPLGLS-DPEGTGG 91
RK + + AS+ G DR + S +S SYL G PGDYG+D GLS DPE
Sbjct: 1 RKSATTKKVASSGSPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPET--- 57
Query: 92 FIEPKWLAYGEVINGRYAMLGAVGAIAPEILGKAGLIPQETALAWFQTGV-IPPAGTYNY 150
F + + L EVI+ R+AMLGA+G + PE+L + G+ E WF+ G I G +Y
Sbjct: 58 FSKNREL---EVIHSRWAMLGALGCVFPELLSRNGVKFGEAV--WFKAGSQIFSEGGLDY 112
Query: 151 WADP--------YTLFVLEMALMGFAEHRRFQDWANPGSMGRQYFLGFEKYLGGSGDPAY 202
+P ++ ++ LMG E R G +G + Y GGS DP
Sbjct: 113 LGNPSLVHAQSILAIWATQVILMGAVEGYRIAG----GPLGE---VVDPLYPGGSFDP-- 163
Query: 203 XXXXXXXXXXXXKDEKSMKDFKLKEVKNGRLAMLAILGYFVQGLVTGVGPYQNLLDHLAD 262
D ++ + K+KE+KNGRLAM ++ G+FVQ +VTG GP +NL DHLAD
Sbjct: 164 --------LGLADDPEAFAELKVKELKNGRLAMFSMFGFFVQAIVTGKGPLENLADHLAD 215
Query: 263 PVNNN 267
PVNNN
Sbjct: 216 PVNNN 220
>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 = 120 bits (301), Expect = 9e-28, Method: Compositional matrix adjust.
Identities = 87/217 (40%), Positives = 117/217 (53%), Gaps = 35/217 (16%)
Query: 61 SKQSLSYLDGSLPGDYGFDPLGLS-DPEGTGGFIEPKWLAYGEVINGRYAMLGAVGAIAP 119
S +S SYL G PGDYG+D GLS DPE F + + L EVI+ R+AMLGA+G + P
Sbjct: 29 SGESPSYLTGEFPGDYGWDTAGLSADPET---FAKNREL---EVIHCRWAMLGALGCVFP 82
Query: 120 EILGKAGLIPQETALAWFQTGV-IPPAGTYNYWADP--------YTLFVLEMALMGFAEH 170
E+L + G+ E WF+ G I G +Y +P ++ ++ LMG E
Sbjct: 83 ELLARNGVKFGEAV--WFKAGSQIFSEGGLDYLGNPSLVHAQSILAIWACQVILMGAVEG 140
Query: 171 RRFQDWANPGSMGRQYFLGFEKYLGGSGDPAYXXXXXXXXXXXXKDEKSMKDFKLKEVKN 230
R G +G + Y GGS DP D ++ + K+KE+KN
Sbjct: 141 YRIAG----GPLGE---VVDPLYPGGSFDP----------LGLADDPEAFAELKVKEIKN 183
Query: 231 GRLAMLAILGYFVQGLVTGVGPYQNLLDHLADPVNNN 267
GRLAM ++ G+FVQ +VTG GP +NL DHLADPVNNN
Sbjct: 184 GRLAMFSMFGFFVQAIVTGKGPLENLADHLADPVNNN 220
>pdb|2O01|4 Chain 4, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 165
Score = 110 bits (275), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 66/177 (37%), Positives = 94/177 (53%), Gaps = 16/177 (9%)
Query: 96 KWLAYGEVINGRYAMLGAVGAIAPEILGKAGLIPQETALAWFQTGVIPPAGTYNYWADPY 155
+W E++NGR+AMLG G + PE+ G+I W+ AG Y+A
Sbjct: 5 RWFVQAELVNGRWAMLGVAGMLLPEVFTSIGII---NVPKWYA------AGKEEYFASSS 55
Query: 156 TLFVLEMALMGFAEHRRFQDWANPGSMGRQYFLGFEKYLGGSGDPAYXXXXXXXXXXXXK 215
TLFV+E L + E RR+QD NPGS+ + F++Y +G+ Y
Sbjct: 56 TLFVIEFILSHYVEIRRWQDIKNPGSVNQDPI--FKQYSLPAGEVGYPGGIFNPLNFAPT 113
Query: 216 DEKSMKDFKLKEVKNGRLAMLAILGYFVQGLVTGVGPYQNLLDHLADPVNNNVLTSL 272
E K KE+ NGRLAMLA LG+ +Q VTG GP+ NLL H++DP +N ++ +L
Sbjct: 114 LEA-----KEKEIANGRLAMLAFLGFIIQHNVTGKGPFDNLLQHISDPWHNTIVQTL 165
>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 = 108 bits (269), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 77/219 (35%), Positives = 107/219 (48%), Gaps = 41/219 (18%)
Query: 58 WFASKQSLSYLDGSLPGDYGFDPLGLSD-PEGTGGFIEPKWLAYGEVINGRYAMLGAVGA 116
W + +YLDGS PGD+GFDPLGL + P + E E+I+ R+AML G
Sbjct: 48 WMPGEPRPAYLDGSAPGDFGFDPLGLGEVPANLERYKE------SELIHCRWAMLAVPGI 101
Query: 117 IAPEILGKAGLIPQETALAWFQTGVIPPAGTYNYWADPY------TLFVLEMALMGFAEH 170
+ PE LG + A W P G Y +P T+ +E + F EH
Sbjct: 102 LVPEALGYGNWV---KAQEWAAL----PGGQATYLGNPVPWGTLPTILAIEFLAIAFVEH 154
Query: 171 RRFQDWANPGSMGRQYFLGFEKYLGGSGDPAYXXXXXXXXXXXXKDEKSMKDFKLKEVKN 230
+R + +P +KY GG+ DP KD K +++ K+KE+KN
Sbjct: 155 QRSME-KDPEK---------KKYPGGAFDP----------LGYSKDPKKLEELKVKEIKN 194
Query: 231 GRLAMLAILGYFV-QGLVTGVGPYQNLLDHLADPVNNNV 268
GRLA+LA +G+ V Q G GP +NL HLADP +NN+
Sbjct: 195 GRLALLAFVGFCVQQSAYPGTGPLENLATHLADPWHNNI 233
>pdb|2O01|1 Chain 1, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 187
Score = 105 bits (262), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 76/211 (36%), Positives = 105/211 (49%), Gaps = 41/211 (19%)
Query: 66 SYLDGSLPGDYGFDPLGLSD-PEGTGGFIEPKWLAYGEVINGRYAMLGAVGAIAPEILGK 124
+YLDGS PGD+GFDPLGL + P + E E+I+ R+AML G + PE LG
Sbjct: 8 AYLDGSAPGDFGFDPLGLGEVPANLERYKE------SELIHCRWAMLAVPGILVPEALGY 61
Query: 125 AGLIPQETALAWFQTGVIPPAGTYNYWADPY------TLFVLEMALMGFAEHRRFQDWAN 178
+ A W P G Y +P T+ +E + F EH+R + +
Sbjct: 62 GNWV---KAQEWAAL----PGGQATYLGNPVPWGTLPTILAIEFLAIAFVEHQRSME-KD 113
Query: 179 PGSMGRQYFLGFEKYLGGSGDPAYXXXXXXXXXXXXKDEKSMKDFKLKEVKNGRLAMLAI 238
P +KY GG+ DP KD K +++ K+KE+KNGRLA+LA
Sbjct: 114 PEK---------KKYPGGAFDP----------LGYSKDPKKLEELKVKEIKNGRLALLAF 154
Query: 239 LGYFV-QGLVTGVGPYQNLLDHLADPVNNNV 268
+G+ V Q G GP +NL HLADP +NN+
Sbjct: 155 VGFCVQQSAYPGTGPLENLATHLADPWHNNI 185
>pdb|3LW5|2 Chain 2, Improved Model Of Plant Photosystem I
Length = 176
Score = 103 bits (258), Expect = 8e-23, Method: Compositional matrix adjust.
Identities = 65/190 (34%), Positives = 94/190 (49%), Gaps = 18/190 (9%)
Query: 84 SDPEGTGGFIEPKWLAYGEVINGRYAMLGAVGAIAPEILGKAGLIPQETALAWFQTGVIP 143
SDPE +W E+++ R+AMLGA G PE L K G++ +W+
Sbjct: 1 SDPESL------RWNVQAELVHSRWAMLGAAGIFIPEFLTKLGIL---NTPSWYT----- 46
Query: 144 PAGTYNYWADPYTLFVLEMALMGFAEHRRFQDWANPGSMGRQYFLGFEKYLGGSGDPAYX 203
AG Y+ D TLF++E+ +G+AE RR+ D NPG + K G D Y
Sbjct: 47 -AGEQEYFTDTTTLFIVELVFIGWAEGRRWADILNPGCVNTDPIFPNNKLTGT--DVGYP 103
Query: 204 XXXXXX-XXXXXKDEKSMKDFKLKEVKNGRLAMLAILGYFVQGLVTGVGPYQNLLDHLAD 262
+ +K+ + KE+KNGRLAMLA++G + Q + TG GP NL HLAD
Sbjct: 104 GGLWFDPLGWGSASPQKLKELRTKEIKNGRLAMLAVMGAWFQHIYTGTGPIDNLFAHLAD 163
Query: 263 PVNNNVLTSL 272
P + + +
Sbjct: 164 PGHATIFAAF 173
Score = 29.6 bits (65), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 24/67 (35%), Positives = 29/67 (43%), Gaps = 4/67 (5%)
Query: 62 KQSLSYLDGSLPGDYGFDPLGLSDPEGTGGFIEPKWLAYGEVINGRYAMLGAVGAIAPEI 121
L+ D PG FDPLG G+ + K L E+ NGR AML +GA I
Sbjct: 92 NNKLTGTDVGYPGGLWFDPLGW----GSASPQKLKELRTKEIKNGRLAMLAVMGAWFQHI 147
Query: 122 LGKAGLI 128
G I
Sbjct: 148 YTGTGPI 154
>pdb|3LW5|4 Chain 4, Improved Model Of Plant Photosystem I
Length = 166
Score = 102 bits (254), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 67/186 (36%), Positives = 94/186 (50%), Gaps = 23/186 (12%)
Query: 84 SDPEGTGGFIEPKWLAYGEVINGRYAMLGAVGAIAPEILGKAGLIPQETALAWFQTGVIP 143
DPE +W E++NGR+AMLG G + PE+ G+I W+
Sbjct: 3 EDPENL------RWFVQAELVNGRWAMLGVAGMLLPEVFTSIGII---NVPKWYA----- 48
Query: 144 PAGTYNYWADPYTLFVLEMALMGFAEHRRFQDWANPGSMGRQYFLGFEKYLGGSGDPAYX 203
AG Y+A TLFV+E L + E RR+QD NPGS+ + F++Y +G+ Y
Sbjct: 49 -AGKEEYFASSSTLFVIEFILSHYVEIRRWQDIKNPGSVNQDPI--FKQYSLPAGEVGYP 105
Query: 204 XXXXXXXXXXXKDEKSMKDFKLKEVKNGRLAMLAILGYFVQGLVTGVGPYQNLLDHLADP 263
E K KE+ NGRL MLA LG+ +Q VTG GP+ NLL H++DP
Sbjct: 106 GGIFNPLNFAPTLEA-----KEKEIANGRL-MLAFLGFIIQHNVTGKGPFDNLLQHISDP 159
Query: 264 VNNNVL 269
+N ++
Sbjct: 160 WHNTIV 165
>pdb|3LW5|1 Chain 1, Improved Model Of Plant Photosystem I
Length = 170
Score = 91.7 bits (226), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 70/201 (34%), Positives = 96/201 (47%), Gaps = 41/201 (20%)
Query: 71 SLPGDYGFDPLGLSD-PEGTGGFIEPKWLAYGEVINGRYAMLGAVGAIAPEILGKAGLIP 129
S PGD+GFDPLGL + P + E E+I+ R+AML G + PE LG +
Sbjct: 1 SAPGDFGFDPLGLGEVPANLERYKE------SELIHCRWAMLAVPGILVPEALGYGNWV- 53
Query: 130 QETALAWFQTGVIPPAGTYNYWADPY------TLFVLEMALMGFAEHRRFQDWANPGSMG 183
A W P G Y +P T+ +E + F EH+R + +P
Sbjct: 54 --KAQEWAAL----PGGQATYLGNPVPWGTLPTILAIEFLAIAFVEHQRSME-KDPEK-- 104
Query: 184 RQYFLGFEKYLGGSGDPAYXXXXXXXXXXXXKDEKSMKDFKLKEVKNGRLAMLAILGYFV 243
+KY GG+ DP KD K +++ K+KE+KNGRLA+LA +G+ V
Sbjct: 105 -------KKYPGGAFDP----------LGYSKDPKKLEELKVKEIKNGRLALLAFVGFCV 147
Query: 244 -QGLVTGVGPYQNLLDHLADP 263
Q G GP +NL HLADP
Sbjct: 148 QQSAYPGTGPLENLATHLADP 168
>pdb|3PL9|A Chain A, Crystal Structure Of Spinach Minor Light-Harvesting
Complex Cp29 At 2.80 Angstrom Resolution
Length = 243
Score = 91.3 bits (225), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 73/260 (28%), Positives = 108/260 (41%), Gaps = 72/260 (27%)
Query: 53 ADRPLWFASKQSLSYLDGSLPGDYGFDPLGLSDP-------------------------- 86
DRPLW+ ++ YLDGSL GDYGFDP GL P
Sbjct: 9 TDRPLWYPGAKAPEYLDGSLVGDYGFDPFGLGKPAEYLQYDYDGLDQNLAKNLAGDIIGT 68
Query: 87 -----EGTGGFIEPKWLAYG-------EVINGRYAMLGAVGAIAPEILGKAGLIPQETAL 134
+ ++P +G E+I+GR+AML +GA+ E L T +
Sbjct: 69 RTESADVKSTSLQPYSEVFGLQRFRECELIHGRWAMLATLGALTVEGL---------TGI 119
Query: 135 AWFQTGVIPPAGTYNYWADPY-----TLFVLEMALMGFAEHRRFQDWANPGSMGRQYFLG 189
W G + +Y P TL +E+ ++G+ E +R + +
Sbjct: 120 TWQDAGKVELIEGSSYLGQPLPFSMTTLIWIEVLVIGYIEFQRNAELDTEKRL------- 172
Query: 190 FEKYLGGSGDPAYXXXXXXXXXXXXKDEKSMKDFKLKEVKNGRLAMLAILGYFVQGLVTG 249
Y GG+ DP D + +L E+K+ RLAM+ LG+ VQ VTG
Sbjct: 173 ---YPGGTFDP----------LGLASDPEKKPILQLAEIKHARLAMVGFLGFAVQAAVTG 219
Query: 250 VGPYQNLLDHLADPVNNNVL 269
GP N + HL+DP++ +L
Sbjct: 220 KGPLNNWVTHLSDPLHTTIL 239
>pdb|3BE8|A Chain A, Crystal Structure Of The Synaptic Protein Neuroligin 4
pdb|3BE8|B Chain B, Crystal Structure Of The Synaptic Protein Neuroligin 4
pdb|2WQZ|A Chain A, Crystal Structure Of Synaptic Protein Neuroligin-4 In
Complex With Neurexin-beta 1: Alternative Refinement
pdb|2WQZ|B Chain B, Crystal Structure Of Synaptic Protein Neuroligin-4 In
Complex With Neurexin-beta 1: Alternative Refinement
pdb|2XB6|A Chain A, Revisited Crystal Structure Of Neurexin1beta-neuroligin4
Complex
pdb|2XB6|B Chain B, Revisited Crystal Structure Of Neurexin1beta-neuroligin4
Complex
Length = 588
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 23/60 (38%), Positives = 28/60 (46%), Gaps = 5/60 (8%)
Query: 87 EGTGGFIEPKWLA-YGEVI----NGRYAMLGAVGAIAPEILGKAGLIPQETALAWFQTGV 141
EGTG I+ LA YG VI N R +LG + G GL+ Q AL W + V
Sbjct: 148 EGTGNMIDGSILASYGNVIVITINYRLGILGFLSTGDQAAKGNYGLLDQIQALRWIEENV 207
>pdb|2GOI|A Chain A, Crystal Structure Of Mouse Sperm C-Type Lysozyme-Like
Protein 1
pdb|2GOI|B Chain B, Crystal Structure Of Mouse Sperm C-Type Lysozyme-Like
Protein 1
pdb|2GOI|C Chain C, Crystal Structure Of Mouse Sperm C-Type Lysozyme-Like
Protein 1
Length = 138
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 21/50 (42%), Gaps = 6/50 (12%)
Query: 218 KSMKDFKLKEVKNGRLAMLAILGYFVQGLVTGVGPYQNLLDHLADPVNNN 267
K M DF L + LA L Y+ G T N +DH AD NN
Sbjct: 12 KEMHDFGLDGYRGYNLADWVCLAYYTSGFNT------NAVDHEADGSTNN 55
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
0.318 0.138 0.427
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,453,407
Number of Sequences: 62578
Number of extensions: 373986
Number of successful extensions: 700
Number of sequences better than 100.0: 34
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 629
Number of HSP's gapped (non-prelim): 41
length of query: 275
length of database: 14,973,337
effective HSP length: 97
effective length of query: 178
effective length of database: 8,903,271
effective search space: 1584782238
effective search space used: 1584782238
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)