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= 028743
(204 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3PL9|A Chain A, Crystal Structure Of Spinach Minor Light-Harvesting
Complex Cp29 At 2.80 Angstrom Resolution
Length = 243
Score = 317 bits (811), Expect = 3e-87, Method: Compositional matrix adjust.
Identities = 152/197 (77%), Positives = 171/197 (86%)
Query: 1 MVGDRGFDPLGLGKPTEYLQYDFDSLDQNLAKNDVGELLGVITDSGELQPTPLQPYTEVF 60
+VGD GFDP GLGKP EYLQYD+D LDQNLAKN G+++G T+S +++ T LQPY+EVF
Sbjct: 28 LVGDYGFDPFGLGKPAEYLQYDYDGLDQNLAKNLAGDIIGTRTESADVKSTSLQPYSEVF 87
Query: 61 GLQRFRECELIHGRWAMLGTLGAIAVEALTGVAWQDAGKVELVEGSSYLGQPLPFSLTTL 120
GLQRFRECELIHGRWAML TLGA+ VE LTG+ WQDAGKVEL+EGSSYLGQPLPFS+TTL
Sbjct: 88 GLQRFRECELIHGRWAMLATLGALTVEGLTGITWQDAGKVELIEGSSYLGQPLPFSMTTL 147
Query: 121 IWIEVIVIGYIEYQRNAELDPVKRLYPGGYFDPLGLASDPGKLENLQLAEIKHARLAMVA 180
IWIEV+VIGYIE+QRNAELD KRLYPGG FDPLGLASDP K LQLAEIKHARLAMV
Sbjct: 148 IWIEVLVIGYIEFQRNAELDTEKRLYPGGTFDPLGLASDPEKKPILQLAEIKHARLAMVG 207
Query: 181 FLIFGIQAAFTGKGPIS 197
FL F +QAA TGKGP++
Sbjct: 208 FLGFAVQAAVTGKGPLN 224
>pdb|2O01|1 Chain 1, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 187
Score = 127 bits (320), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 67/144 (46%), Positives = 98/144 (68%), Gaps = 4/144 (2%)
Query: 62 LQRFRECELIHGRWAMLGTLGAIAVEALTGVAWQDAGKVELVEG--SSYLGQPLPF-SLT 118
L+R++E ELIH RWAML G + EAL W A + + G ++YLG P+P+ +L
Sbjct: 32 LERYKESELIHCRWAMLAVPGILVPEALGYGNWVKAQEWAALPGGQATYLGNPVPWGTLP 91
Query: 119 TLIWIEVIVIGYIEYQRNAELDPVKRLYPGGYFDPLGLASDPGKLENLQLAEIKHARLAM 178
T++ IE + I ++E+QR+ E DP K+ YPGG FDPLG + DP KLE L++ EIK+ RLA+
Sbjct: 92 TILAIEFLAIAFVEHQRSMEKDPEKKKYPGGAFDPLGYSKDPKKLEELKVKEIKNGRLAL 151
Query: 179 VAFLIFGI-QAAFTGKGPISFVAT 201
+AF+ F + Q+A+ G GP+ +AT
Sbjct: 152 LAFVGFCVQQSAYPGTGPLENLAT 175
Score = 33.5 bits (75), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 17/35 (48%), Positives = 22/35 (62%), Gaps = 1/35 (2%)
Query: 147 PGGY-FDPLGLASDPGKLENLQLAEIKHARLAMVA 180
PG + FDPLGL P LE + +E+ H R AM+A
Sbjct: 15 PGDFGFDPLGLGEVPANLERYKESELIHCRWAMLA 49
>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 = 127 bits (320), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 67/144 (46%), Positives = 98/144 (68%), Gaps = 4/144 (2%)
Query: 62 LQRFRECELIHGRWAMLGTLGAIAVEALTGVAWQDAGKVELVEG--SSYLGQPLPF-SLT 118
L+R++E ELIH RWAML G + EAL W A + + G ++YLG P+P+ +L
Sbjct: 80 LERYKESELIHCRWAMLAVPGILVPEALGYGNWVKAQEWAALPGGQATYLGNPVPWGTLP 139
Query: 119 TLIWIEVIVIGYIEYQRNAELDPVKRLYPGGYFDPLGLASDPGKLENLQLAEIKHARLAM 178
T++ IE + I ++E+QR+ E DP K+ YPGG FDPLG + DP KLE L++ EIK+ RLA+
Sbjct: 140 TILAIEFLAIAFVEHQRSMEKDPEKKKYPGGAFDPLGYSKDPKKLEELKVKEIKNGRLAL 199
Query: 179 VAFLIFGI-QAAFTGKGPISFVAT 201
+AF+ F + Q+A+ G GP+ +AT
Sbjct: 200 LAFVGFCVQQSAYPGTGPLENLAT 223
Score = 33.9 bits (76), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 17/35 (48%), Positives = 22/35 (62%), Gaps = 1/35 (2%)
Query: 147 PGGY-FDPLGLASDPGKLENLQLAEIKHARLAMVA 180
PG + FDPLGL P LE + +E+ H R AM+A
Sbjct: 63 PGDFGFDPLGLGEVPANLERYKESELIHCRWAMLA 97
>pdb|3LW5|1 Chain 1, Improved Model Of Plant Photosystem I
Length = 170
Score = 127 bits (320), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 67/144 (46%), Positives = 98/144 (68%), Gaps = 4/144 (2%)
Query: 62 LQRFRECELIHGRWAMLGTLGAIAVEALTGVAWQDAGKVELVEG--SSYLGQPLPF-SLT 118
L+R++E ELIH RWAML G + EAL W A + + G ++YLG P+P+ +L
Sbjct: 20 LERYKESELIHCRWAMLAVPGILVPEALGYGNWVKAQEWAALPGGQATYLGNPVPWGTLP 79
Query: 119 TLIWIEVIVIGYIEYQRNAELDPVKRLYPGGYFDPLGLASDPGKLENLQLAEIKHARLAM 178
T++ IE + I ++E+QR+ E DP K+ YPGG FDPLG + DP KLE L++ EIK+ RLA+
Sbjct: 80 TILAIEFLAIAFVEHQRSMEKDPEKKKYPGGAFDPLGYSKDPKKLEELKVKEIKNGRLAL 139
Query: 179 VAFLIFGI-QAAFTGKGPISFVAT 201
+AF+ F + Q+A+ G GP+ +AT
Sbjct: 140 LAFVGFCVQQSAYPGTGPLENLAT 163
Score = 33.9 bits (76), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 17/35 (48%), Positives = 22/35 (62%), Gaps = 1/35 (2%)
Query: 147 PGGY-FDPLGLASDPGKLENLQLAEIKHARLAMVA 180
PG + FDPLGL P LE + +E+ H R AM+A
Sbjct: 3 PGDFGFDPLGLGEVPANLERYKESELIHCRWAMLA 37
>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 = 95.1 bits (235), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 66/156 (42%), Positives = 86/156 (55%), Gaps = 20/156 (12%)
Query: 62 LQRFRECELIHGRWAMLGTLGAIAVEALT--GV-----AWQDAGKVELVEGS-SYLGQPL 113
+ RE E+IH RWAMLG LG++ E L+ GV W AG EG YLG P
Sbjct: 58 FSKNRELEVIHSRWAMLGALGSVFPELLSRNGVKFGEAVWFKAGSQIFSEGGLDYLGNPS 117
Query: 114 PFSLTTL--IW-IEVIVIGYIEYQRNAE------LDPVKRLYPGGYFDPLGLASDPGKLE 164
++ IW +VI++G +E R A +DP LYPGG FDPLGLA DP
Sbjct: 118 LVHAQSILAIWATQVILMGAVEGYRIAGGPLGEVVDP---LYPGGSFDPLGLADDPEAFA 174
Query: 165 NLQLAEIKHARLAMVAFLIFGIQAAFTGKGPISFVA 200
L++ E+K+ RLAM + F +QA TGKGP+ +A
Sbjct: 175 ELKVKELKNGRLAMFSMFGFFVQAIVTGKGPLENLA 210
Score = 28.1 bits (61), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 22/38 (57%), Gaps = 1/38 (2%)
Query: 146 YPGGY-FDPLGLASDPGKLENLQLAEIKHARLAMVAFL 182
+PG Y +D GL++DP + E+ H+R AM+ L
Sbjct: 40 FPGDYGWDTAGLSADPETFSKNRELEVIHSRWAMLGAL 77
>pdb|1VCR|A Chain A, An Icosahedral Assembly Of Light-Harvesting Chlorophyll AB
Protein Complex From Pea Thylakoid Membranes
Length = 232
Score = 94.7 bits (234), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 66/156 (42%), Positives = 85/156 (54%), Gaps = 20/156 (12%)
Query: 62 LQRFRECELIHGRWAMLGTLGAIAVEALT--GV-----AWQDAGKVELVEGS-SYLGQPL 113
+ RE E+IH RWAMLG LG + E L+ GV W AG EG YLG P
Sbjct: 58 FSKNRELEVIHSRWAMLGALGCVFPELLSRNGVKFGEAVWFKAGSQIFSEGGLDYLGNPS 117
Query: 114 PFSLTTL--IW-IEVIVIGYIEYQRNAE------LDPVKRLYPGGYFDPLGLASDPGKLE 164
++ IW +VI++G +E R A +DP LYPGG FDPLGLA DP
Sbjct: 118 LVHAQSILAIWATQVILMGAVEGYRIAGGPLGEVVDP---LYPGGSFDPLGLADDPEAFA 174
Query: 165 NLQLAEIKHARLAMVAFLIFGIQAAFTGKGPISFVA 200
L++ E+K+ RLAM + F +QA TGKGP+ +A
Sbjct: 175 ELKVKELKNGRLAMFSMFGFFVQAIVTGKGPLENLA 210
Score = 28.1 bits (61), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 22/38 (57%), Gaps = 1/38 (2%)
Query: 146 YPGGY-FDPLGLASDPGKLENLQLAEIKHARLAMVAFL 182
+PG Y +D GL++DP + E+ H+R AM+ L
Sbjct: 40 FPGDYGWDTAGLSADPETFSKNRELEVIHSRWAMLGAL 77
>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 = 94.4 bits (233), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 67/156 (42%), Positives = 84/156 (53%), Gaps = 20/156 (12%)
Query: 62 LQRFRECELIHGRWAMLGTLGAIAVE--ALTGV-----AWQDAGKVELVEGS-SYLGQPL 113
+ RE E+IH RWAMLG LG + E A GV W AG EG YLG P
Sbjct: 58 FAKNRELEVIHCRWAMLGALGCVFPELLARNGVKFGEAVWFKAGSQIFSEGGLDYLGNPS 117
Query: 114 PFSLTTL--IW-IEVIVIGYIEYQRNAE------LDPVKRLYPGGYFDPLGLASDPGKLE 164
++ IW +VI++G +E R A +DP LYPGG FDPLGLA DP
Sbjct: 118 LVHAQSILAIWACQVILMGAVEGYRIAGGPLGEVVDP---LYPGGSFDPLGLADDPEAFA 174
Query: 165 NLQLAEIKHARLAMVAFLIFGIQAAFTGKGPISFVA 200
L++ EIK+ RLAM + F +QA TGKGP+ +A
Sbjct: 175 ELKVKEIKNGRLAMFSMFGFFVQAIVTGKGPLENLA 210
Score = 27.3 bits (59), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 21/38 (55%), Gaps = 1/38 (2%)
Query: 146 YPGGY-FDPLGLASDPGKLENLQLAEIKHARLAMVAFL 182
+PG Y +D GL++DP + E+ H R AM+ L
Sbjct: 40 FPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGAL 77
>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 = 79.0 bits (193), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 69/221 (31%), Positives = 95/221 (42%), Gaps = 79/221 (35%)
Query: 1 MVGDRGFDPLGLGKPTEYLQYDFDSLDQNLAKNDVGELLGVITDSGELQPTPLQPYTEVF 60
+ GD GFDPLGLG E L+++
Sbjct: 81 LPGDFGFDPLGLGSDPESLRWNV------------------------------------- 103
Query: 61 GLQRFRECELIHGRWAMLGTLGAIAVEALTGV------AWQDAGKVELVEGSSYLGQPLP 114
+ EL+H RWAMLG G E LT + +W AG+ E +
Sbjct: 104 ------QAELVHSRWAMLGAAGIFIPEFLTKLGILNTPSWYTAGEQEYFTDT-------- 149
Query: 115 FSLTTLIWIEVIVIGYIEYQRNAEL--------DPV---KRL------YPGG-YFDPLGL 156
TTL +E++ IG+ E +R A++ DP+ +L YPGG +FDPLG
Sbjct: 150 ---TTLFIVELVFIGWAEGRRWADILNPGCVNTDPIFPNNKLTGTDVGYPGGLWFDPLGW 206
Query: 157 AS-DPGKLENLQLAEIKHARLAMVAFLIFGIQAAFTGKGPI 196
S P KL+ L+ EIK+ RLAM+A + Q +TG GPI
Sbjct: 207 GSASPQKLKELRTKEIKNGRLAMLAVMGAWFQHIYTGTGPI 247
>pdb|2O01|2 Chain 2, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 186
Score = 75.5 bits (184), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 68/221 (30%), Positives = 94/221 (42%), Gaps = 79/221 (35%)
Query: 1 MVGDRGFDPLGLGKPTEYLQYDFDSLDQNLAKNDVGELLGVITDSGELQPTPLQPYTEVF 60
+ GD GFDPLGL E L+++
Sbjct: 8 LPGDFGFDPLGLSSDPESLRWNV------------------------------------- 30
Query: 61 GLQRFRECELIHGRWAMLGTLGAIAVEALTGV------AWQDAGKVELVEGSSYLGQPLP 114
+ EL+H RWAMLG G E LT + +W AG+ E +
Sbjct: 31 ------QAELVHSRWAMLGAAGIFIPEFLTKLGILNTPSWYTAGEQEYFTDT-------- 76
Query: 115 FSLTTLIWIEVIVIGYIEYQRNAEL--------DPV---KRL------YPGG-YFDPLGL 156
TTL +E++ IG+ E +R A++ DP+ +L YPGG +FDPLG
Sbjct: 77 ---TTLFIVELVFIGWAEGRRWADILNPGCVNTDPIFPNNKLTGTDVGYPGGLWFDPLGW 133
Query: 157 AS-DPGKLENLQLAEIKHARLAMVAFLIFGIQAAFTGKGPI 196
S P KL+ L+ EIK+ RLAM+A + Q +TG GPI
Sbjct: 134 GSASPQKLKELRTKEIKNGRLAMLAVMGAWFQHIYTGTGPI 174
>pdb|3LW5|2 Chain 2, Improved Model Of Plant Photosystem I
Length = 176
Score = 75.1 bits (183), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 57/155 (36%), Positives = 79/155 (50%), Gaps = 36/155 (23%)
Query: 67 ECELIHGRWAMLGTLGAIAVEALTGV------AWQDAGKVELVEGSSYLGQPLPFSLTTL 120
+ EL+H RWAMLG G E LT + +W AG+ E + TTL
Sbjct: 11 QAELVHSRWAMLGAAGIFIPEFLTKLGILNTPSWYTAGEQEYFTDT-----------TTL 59
Query: 121 IWIEVIVIGYIEYQRNAEL--------DPV---KRL------YPGG-YFDPLGLAS-DPG 161
+E++ IG+ E +R A++ DP+ +L YPGG +FDPLG S P
Sbjct: 60 FIVELVFIGWAEGRRWADILNPGCVNTDPIFPNNKLTGTDVGYPGGLWFDPLGWGSASPQ 119
Query: 162 KLENLQLAEIKHARLAMVAFLIFGIQAAFTGKGPI 196
KL+ L+ EIK+ RLAM+A + Q +TG GPI
Sbjct: 120 KLKELRTKEIKNGRLAMLAVMGAWFQHIYTGTGPI 154
>pdb|2O01|4 Chain 4, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 165
Score = 73.6 bits (179), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 57/158 (36%), Positives = 73/158 (46%), Gaps = 38/158 (24%)
Query: 61 GLQRFRECELIHGRWAMLGTLGAIAVEALTGVA------WQDAGKVELVEGSSYLGQPLP 114
L+ F + EL++GRWAMLG G + E T + W AGK E SS
Sbjct: 3 NLRWFVQAELVNGRWAMLGVAGMLLPEVFTSIGIINVPKWYAAGKEEYFASSS------- 55
Query: 115 FSLTTLIWIEVIVIGYIEYQRNAEL--------DPVKRL---------YPGGYFDPLGLA 157
TL IE I+ Y+E +R ++ DP+ + YPGG F+PL A
Sbjct: 56 ----TLFVIEFILSHYVEIRRWQDIKNPGSVNQDPIFKQYSLPAGEVGYPGGIFNPLNFA 111
Query: 158 SDPGKLENLQLAEIKHARLAMVAFLIFGIQAAFTGKGP 195
E EI + RLAM+AFL F IQ TGKGP
Sbjct: 112 PTLEAKEK----EIANGRLAMLAFLGFIIQHNVTGKGP 145
>pdb|3LW5|4 Chain 4, Improved Model Of Plant Photosystem I
Length = 166
Score = 67.0 bits (162), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 56/158 (35%), Positives = 72/158 (45%), Gaps = 39/158 (24%)
Query: 61 GLQRFRECELIHGRWAMLGTLGAIAVEALTGVA------WQDAGKVELVEGSSYLGQPLP 114
L+ F + EL++GRWAMLG G + E T + W AGK E SS
Sbjct: 7 NLRWFVQAELVNGRWAMLGVAGMLLPEVFTSIGIINVPKWYAAGKEEYFASSS------- 59
Query: 115 FSLTTLIWIEVIVIGYIEYQRNAEL--------DPVKRL---------YPGGYFDPLGLA 157
TL IE I+ Y+E +R ++ DP+ + YPGG F+PL A
Sbjct: 60 ----TLFVIEFILSHYVEIRRWQDIKNPGSVNQDPIFKQYSLPAGEVGYPGGIFNPLNFA 115
Query: 158 SDPGKLENLQLAEIKHARLAMVAFLIFGIQAAFTGKGP 195
E EI + RL M+AFL F IQ TGKGP
Sbjct: 116 PTLEAKEK----EIANGRL-MLAFLGFIIQHNVTGKGP 148
>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 = 67.0 bits (162), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 50/156 (32%), Positives = 75/156 (48%), Gaps = 34/156 (21%)
Query: 69 ELIHGRWAMLGTLGAIAVEAL---------TGVAWQDAGKVELVEGSSYLGQPLPFSLTT 119
E+I+GR+AMLG +GAIA E L T + W G + +Y T
Sbjct: 103 EIINGRYAMLGAVGAIAPEILGKAGLIPQETALPWFRTGFIPPAGTYNYWADSY-----T 157
Query: 120 LIWIEVIVIGYIEYQRNAELDPVKRL-------------------YPGG-YFDPLGLASD 159
L E+ ++G+ E++R + + YPGG +F+PLG D
Sbjct: 158 LFVFEMALMGFAEHRRFQDWAKPGSMGKQYFLGLEKGLGGSGEPAYPGGPFFNPLGFGKD 217
Query: 160 PGKLENLQLAEIKHARLAMVAFLIFGIQAAFTGKGP 195
L++L+L E+K+ RLAM+A L + +QA TG GP
Sbjct: 218 EKSLKDLKLKEVKNGRLAMLAILGYFVQALVTGVGP 253
>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 = 66.6 bits (161), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 67/216 (31%), Positives = 85/216 (39%), Gaps = 82/216 (37%)
Query: 3 GDRGFDPLGLGKPTEYLQYDFDSLDQNLAKNDVGELLGVITDSGELQPTPLQPYTEVFGL 62
GD GFDPLGL + E L++
Sbjct: 72 GDNGFDPLGLAEDPENLRW----------------------------------------- 90
Query: 63 QRFRECELIHGRWAMLGTLGAIAVEALTGVA------WQDAGKVELVEGSSYLGQPLPFS 116
F + EL++GRWAMLG G + E T + W AGK E SS
Sbjct: 91 --FVQAELVNGRWAMLGVAGMLLPEVFTSIGIINVPKWYAAGKEEYFASSS--------- 139
Query: 117 LTTLIWIEVIVIGYIEYQR--------NAELDPVKRL---------YPGGYFDPLGLASD 159
TL IE I+ Y+E +R + DP+ + YPGG F+PL A
Sbjct: 140 --TLFVIEFILSHYVEIRRWQDIKNPGSVNQDPIFKQYSLPAGEVGYPGGIFNPLNFAP- 196
Query: 160 PGKLENLQLAEIKHARLAMVAFLIFGIQAAFTGKGP 195
LE + EI + RL M+AFL F IQ TGKGP
Sbjct: 197 --TLEAKE-KEIANGRL-MLAFLGFIIQHNVTGKGP 228
Score = 32.0 bits (71), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 24/47 (51%)
Query: 151 FDPLGLASDPGKLENLQLAEIKHARLAMVAFLIFGIQAAFTGKGPIS 197
FDPLGLA DP L AE+ + R AM+ + FT G I+
Sbjct: 76 FDPLGLAEDPENLRWFVQAELVNGRWAMLGVAGMLLPEVFTSIGIIN 122
>pdb|3LW5|3 Chain 3, Improved Model Of Plant Photosystem I
Length = 172
Score = 66.2 bits (160), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 51/156 (32%), Positives = 75/156 (48%), Gaps = 34/156 (21%)
Query: 69 ELIHGRWAMLGTLGAIAVEAL---------TGVAWQDAGKVELVEGSSYLGQPLPFSLTT 119
E+I+GR+AMLG +GAIA E L T +AW G + +Y T
Sbjct: 19 EVINGRFAMLGAVGAIAPEYLGKVGLIPQETALAWFQTGVIPPAGTYNYWADNY-----T 73
Query: 120 LIWIEVIVIGYIEYQRNAELDPVKRL-------------------YPGG-YFDPLGLASD 159
L +E+ ++G+ E++R + + YPGG +F+PLG D
Sbjct: 74 LFVLEMALMGFAEHRRFQDWAKPGSMGKQYFLGLEKGFGGSGNPAYPGGPFFNPLGFGKD 133
Query: 160 PGKLENLQLAEIKHARLAMVAFLIFGIQAAFTGKGP 195
L+ L+L E+K+ RLAM+A L + IQ TG GP
Sbjct: 134 EKSLKELKLKEVKNGRLAMLAILGYFIQGLVTGVGP 169
>pdb|2O01|3 Chain 3, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 165
Score = 62.8 bits (151), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 53/156 (33%), Positives = 75/156 (48%), Gaps = 34/156 (21%)
Query: 69 ELIHGRWAMLGTLGAIAVEAL---------TGVAWQDAGKVELVEGSSYLGQPLPFSLTT 119
E+I+GR+AMLG GAIA E L T + W G + +Y T
Sbjct: 6 EIINGRFAMLGAAGAIAPEILGKAGLIPAETALPWFQTGVIPPAGTYTYWADNY-----T 60
Query: 120 LIWIEVIVIGYIEYQRNAE------------LDPVKRL-------YPGG-YFDPLGLASD 159
L +E+ ++G+ E++R + L K L YPGG +F+PLG D
Sbjct: 61 LFVLEMALMGFAEHRRLQDWYNPGSMGKQYFLGLEKGLAGSGNPAYPGGPFFNPLGFGKD 120
Query: 160 PGKLENLQLAEIKHARLAMVAFLIFGIQAAFTGKGP 195
L+ L+L E+K+ RLAM+A L + IQ TG GP
Sbjct: 121 EKSLKELKLKEVKNGRLAMLAILGYFIQGLVTGVGP 156
>pdb|2Y50|A Chain A, Crystal Structure Of Collagenase G From Clostridium
Histolyticum At 2.80 Angstrom Resolution
pdb|2Y6I|A Chain A, Crystal Structure Of Collagenase G From Clostridium
Histolyticum In Complex With
Isoamylphosphonyl-Gly-Pro-Ala At 3.25 Angstrom
Resolution
Length = 785
Score = 28.9 bits (63), Expect = 2.0, Method: Composition-based stats.
Identities = 30/124 (24%), Positives = 43/124 (34%), Gaps = 20/124 (16%)
Query: 40 GVITDSGELQPTPL--------QPYTEVFGLQRFRECELIH---GRWAMLGTLGAIAVEA 88
GV TD+G L P P +F L+ E H R+ + G G
Sbjct: 392 GVSTDNGGLYIEPRGTFYTYERTPQQSIFSLEELFRHEYTHYLQARYLVDGLWGQGPFYE 451
Query: 89 LTGVAWQDAGKVELVEGSSYLGQPLPFSLTTLIWIEVIVIGYIEYQRNAELDPVKRLYPG 148
+ W D G E GS+ LP L ++GY+ + +K+
Sbjct: 452 KNRLTWFDEGTAEFFAGSTRTSGVLPRKL---------ILGYLAKDKVDHRYSLKKTLNS 502
Query: 149 GYFD 152
GY D
Sbjct: 503 GYDD 506
>pdb|2Y3U|A Chain A, Crystal Structure Of Apo Collagenase G From Clostridium
Histolyticum At 2.55 Angstrom Resolution
Length = 785
Score = 28.9 bits (63), Expect = 2.2, Method: Composition-based stats.
Identities = 30/124 (24%), Positives = 43/124 (34%), Gaps = 20/124 (16%)
Query: 40 GVITDSGELQPTPL--------QPYTEVFGLQRFRECELIH---GRWAMLGTLGAIAVEA 88
GV TD+G L P P +F L+ E H R+ + G G
Sbjct: 392 GVSTDNGGLYIEPRGTFYTYERTPQQSIFSLEELFRHEYTHYLQARYLVDGLWGQGPFYE 451
Query: 89 LTGVAWQDAGKVELVEGSSYLGQPLPFSLTTLIWIEVIVIGYIEYQRNAELDPVKRLYPG 148
+ W D G E GS+ LP L ++GY+ + +K+
Sbjct: 452 KNRLTWFDEGTAEFFAGSTRTSGVLPRKL---------ILGYLAKDKVDHRYSLKKTLNS 502
Query: 149 GYFD 152
GY D
Sbjct: 503 GYDD 506
>pdb|3IKM|A Chain A, Crystal Structure Of Human Mitochondrial Dna Polymerase
Holoenzyme
pdb|3IKM|D Chain D, Crystal Structure Of Human Mitochondrial Dna Polymerase
Holoenzyme
Length = 1172
Score = 27.3 bits (59), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 37/77 (48%), Gaps = 3/77 (3%)
Query: 85 AVEALTGVAWQDAGKVELVEGSSYLGQPLPFSLTTLIWIEVIVIGYIEYQRNAELDPVKR 144
A+E+L + GK +L+ + L + + + IW V + Y+E + A+++ ++
Sbjct: 584 AIESLYRKHCLEQGKQQLMPQEAGLAEEFLLTDNSAIWQTVEELDYLEVEAEAKMENLRA 643
Query: 145 LYPGGYFDPLGLASDPG 161
PG PL L + G
Sbjct: 644 AVPG---QPLALTARGG 657
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
0.321 0.142 0.429
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,689,182
Number of Sequences: 62578
Number of extensions: 286408
Number of successful extensions: 566
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 20
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 500
Number of HSP's gapped (non-prelim): 45
length of query: 204
length of database: 14,973,337
effective HSP length: 94
effective length of query: 110
effective length of database: 9,091,005
effective search space: 1000010550
effective search space used: 1000010550
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: 49 (23.5 bits)