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= 040587
(159 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 = 195 bits (496), Expect = 8e-51, Method: Compositional matrix adjust.
Identities = 102/155 (65%), Positives = 107/155 (69%), Gaps = 18/155 (11%)
Query: 16 RKTAGKPKPVSSGSQWYGPDRVKYLDPLSGGAPFYLTGEFPGDYGWDTACLSADPEIFAK 75
RKTAGKPK V S S WYGPDRVKYL P SG +P YLTGEFPGDYGWDTA LSADPE FAK
Sbjct: 1 RKTAGKPKTVQSSSPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFAK 60
Query: 76 NRELKVIHARWAMLGVLCC------------------FKAGAQIFSEGGLDYLENPSLIH 117
NREL+VIH RWAMLG L C FKAG+QIFSEGGLDYL NPSL+H
Sbjct: 61 NRELEVIHCRWAMLGALGCVFPELLARNGVKFGEAVWFKAGSQIFSEGGLDYLGNPSLVH 120
Query: 118 AQSILAVWAIQVILMXXXXXXXXXXXXXXEVTDPL 152
AQSILA+WA QVILM EV DPL
Sbjct: 121 AQSILAIWACQVILMGAVEGYRIAGGPLGEVVDPL 155
>pdb|1VCR|A Chain A, An Icosahedral Assembly Of Light-Harvesting Chlorophyll AB
Protein Complex From Pea Thylakoid Membranes
Length = 232
Score = 189 bits (481), Expect = 5e-49, Method: Compositional matrix adjust.
Identities = 98/155 (63%), Positives = 106/155 (68%), Gaps = 18/155 (11%)
Query: 16 RKTAGKPKPVSSGSQWYGPDRVKYLDPLSGGAPFYLTGEFPGDYGWDTACLSADPEIFAK 75
RK+A K SSGS WYGPDRVKYL P SG +P YLTGEFPGDYGWDTA LSADPE F+K
Sbjct: 1 RKSATTKKVASSGSPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFSK 60
Query: 76 NRELKVIHARWAMLGVLCC------------------FKAGAQIFSEGGLDYLENPSLIH 117
NREL+VIH+RWAMLG L C FKAG+QIFSEGGLDYL NPSL+H
Sbjct: 61 NRELEVIHSRWAMLGALGCVFPELLSRNGVKFGEAVWFKAGSQIFSEGGLDYLGNPSLVH 120
Query: 118 AQSILAVWAIQVILMXXXXXXXXXXXXXXEVTDPL 152
AQSILA+WA QVILM EV DPL
Sbjct: 121 AQSILAIWATQVILMGAVEGYRIAGGPLGEVVDPL 155
>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 = 186 bits (473), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 97/155 (62%), Positives = 105/155 (67%), Gaps = 18/155 (11%)
Query: 16 RKTAGKPKPVSSGSQWYGPDRVKYLDPLSGGAPFYLTGEFPGDYGWDTACLSADPEIFAK 75
RK+A K SSGS WYGPDRVKYL P SG +P YLTGEFPGDYGWDTA LSADPE F+K
Sbjct: 1 RKSATTKKVASSGSPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFSK 60
Query: 76 NRELKVIHARWAMLGVLCC------------------FKAGAQIFSEGGLDYLENPSLIH 117
NREL+VIH+RWAMLG L FKAG+QIFSEGGLDYL NPSL+H
Sbjct: 61 NRELEVIHSRWAMLGALGSVFPELLSRNGVKFGEAVWFKAGSQIFSEGGLDYLGNPSLVH 120
Query: 118 AQSILAVWAIQVILMXXXXXXXXXXXXXXEVTDPL 152
AQSILA+WA QVILM EV DPL
Sbjct: 121 AQSILAIWATQVILMGAVEGYRIAGGPLGEVVDPL 155
>pdb|2O01|2 Chain 2, The Structure Of A Plant Photosystem I Supercomplex At
3.4 Angstrom Resolution
Length = 186
Score = 50.4 bits (119), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 22/48 (45%), Positives = 31/48 (64%)
Query: 48 PFYLTGEFPGDYGWDTACLSADPEIFAKNRELKVIHARWAMLGVLCCF 95
P +L G PGD+G+D LS+DPE N + +++H+RWAMLG F
Sbjct: 1 PEWLDGSLPGDFGFDPLGLSSDPESLRWNVQAELVHSRWAMLGAAGIF 48
>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 = 48.9 bits (115), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 21/48 (43%), Positives = 30/48 (62%)
Query: 48 PFYLTGEFPGDYGWDTACLSADPEIFAKNRELKVIHARWAMLGVLCCF 95
P +L G PGD+G+D L +DPE N + +++H+RWAMLG F
Sbjct: 74 PPWLDGSLPGDFGFDPLGLGSDPESLRWNVQAELVHSRWAMLGAAGIF 121
>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 = 45.8 bits (107), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/45 (46%), Positives = 29/45 (64%)
Query: 47 APFYLTGEFPGDYGWDTACLSADPEIFAKNRELKVIHARWAMLGV 91
+P YLTG PGD G+D L+ DPE + ++++ RWAMLGV
Sbjct: 62 SPGYLTGSLPGDNGFDPLGLAEDPENLRWFVQAELVNGRWAMLGV 106
>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 = 43.9 bits (102), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 20/44 (45%), Positives = 26/44 (59%)
Query: 48 PFYLTGEFPGDYGWDTACLSADPEIFAKNRELKVIHARWAMLGV 91
P YL G PGD+G+D L P + +E ++IH RWAML V
Sbjct: 55 PAYLDGSAPGDFGFDPLGLGEVPANLERYKESELIHCRWAMLAV 98
>pdb|2O01|1 Chain 1, The Structure Of A Plant Photosystem I Supercomplex At
3.4 Angstrom Resolution
Length = 187
Score = 43.9 bits (102), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 20/44 (45%), Positives = 26/44 (59%)
Query: 48 PFYLTGEFPGDYGWDTACLSADPEIFAKNRELKVIHARWAMLGV 91
P YL G PGD+G+D L P + +E ++IH RWAML V
Sbjct: 7 PAYLDGSAPGDFGFDPLGLGEVPANLERYKESELIHCRWAMLAV 50
>pdb|3LW5|1 Chain 1, Improved Model Of Plant Photosystem I
Length = 170
Score = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 22/36 (61%)
Query: 56 PGDYGWDTACLSADPEIFAKNRELKVIHARWAMLGV 91
PGD+G+D L P + +E ++IH RWAML V
Sbjct: 3 PGDFGFDPLGLGEVPANLERYKESELIHCRWAMLAV 38
>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 = 35.8 bits (81), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 25/64 (39%), Positives = 32/64 (50%), Gaps = 9/64 (14%)
Query: 50 YLTGEFPGDYGWDTACLSADPEIFAKNRELK------VIHARWAMLGVLCCFKAGAQIFS 103
YL G PGDYG+D LS DPE E K +I+ R+AMLG + +I
Sbjct: 68 YLDGSLPGDYGFDPLGLS-DPEGTGGFIEPKWLAYGEIINGRYAMLGAVGAI--APEILG 124
Query: 104 EGGL 107
+ GL
Sbjct: 125 KAGL 128
>pdb|3LW5|2 Chain 2, Improved Model Of Plant Photosystem I
Length = 176
Score = 31.2 bits (69), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 18/28 (64%)
Query: 68 ADPEIFAKNRELKVIHARWAMLGVLCCF 95
+DPE N + +++H+RWAMLG F
Sbjct: 1 SDPESLRWNVQAELVHSRWAMLGAAGIF 28
>pdb|3PL9|A Chain A, Crystal Structure Of Spinach Minor Light-Harvesting
Complex Cp29 At 2.80 Angstrom Resolution
Length = 243
Score = 28.5 bits (62), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 31/92 (33%), Gaps = 43/92 (46%)
Query: 47 APFYLTGEFPGDYGWD--------------------------------TACLSAD----- 69
AP YL G GDYG+D T SAD
Sbjct: 20 APEYLDGSLVGDYGFDPFGLGKPAEYLQYDYDGLDQNLAKNLAGDIIGTRTESADVKSTS 79
Query: 70 ----PEIFA--KNRELKVIHARWAMLGVLCCF 95
E+F + RE ++IH RWAML L
Sbjct: 80 LQPYSEVFGLQRFRECELIHGRWAMLATLGAL 111
>pdb|3LZK|A Chain A, The Crystal Structure Of A Probably Aromatic Amino Acid
Degradation Protein From Sinorhizobium Meliloti 1021
pdb|3LZK|B Chain B, The Crystal Structure Of A Probably Aromatic Amino Acid
Degradation Protein From Sinorhizobium Meliloti 1021
pdb|3LZK|C Chain C, The Crystal Structure Of A Probably Aromatic Amino Acid
Degradation Protein From Sinorhizobium Meliloti 1021
pdb|3LZK|D Chain D, The Crystal Structure Of A Probably Aromatic Amino Acid
Degradation Protein From Sinorhizobium Meliloti 1021
Length = 359
Score = 26.9 bits (58), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 25/48 (52%), Gaps = 1/48 (2%)
Query: 2 LAASEIHGKGCITMRKTAGKPKPVSSGSQWYG-PDRVKYLDPLSGGAP 48
L+A I G G ++ + G +PVS G Y ++ ++ + GGAP
Sbjct: 275 LSAGTIIGSGTVSNKLEGGPGRPVSEGGAGYSCIAELRXIETIEGGAP 322
>pdb|1RE5|A Chain A, Crystal Structure Of 3-Carboxy-Cis,Cis-Muconate
Lactonizing Enzyme From Pseudomonas Putida
pdb|1RE5|B Chain B, Crystal Structure Of 3-Carboxy-Cis,Cis-Muconate
Lactonizing Enzyme From Pseudomonas Putida
pdb|1RE5|C Chain C, Crystal Structure Of 3-Carboxy-Cis,Cis-Muconate
Lactonizing Enzyme From Pseudomonas Putida
pdb|1RE5|D Chain D, Crystal Structure Of 3-Carboxy-Cis,Cis-Muconate
Lactonizing Enzyme From Pseudomonas Putida
Length = 450
Score = 25.8 bits (55), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 18/34 (52%), Gaps = 4/34 (11%)
Query: 76 NRELKVIHARWAMLGVLCCFKAG----AQIFSEG 105
R L + HA W L +CC +G AQ+ +EG
Sbjct: 314 ERSLGLWHAEWETLPDICCLVSGALRQAQVIAEG 347
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 0.137 0.452
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,025,775
Number of Sequences: 62578
Number of extensions: 208793
Number of successful extensions: 381
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 360
Number of HSP's gapped (non-prelim): 22
length of query: 159
length of database: 14,973,337
effective HSP length: 91
effective length of query: 68
effective length of database: 9,278,739
effective search space: 630954252
effective search space used: 630954252
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: 47 (22.7 bits)