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= 047658
(229 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2WSC|D Chain D, Improved Model Of Plant Photosystem I
pdb|2WSE|D Chain D, Improved Model Of Plant Photosystem I
pdb|2WSF|D Chain D, Improved Model Of Plant Photosystem I
Length = 212
Score = 267 bits (683), Expect = 3e-72, Method: Compositional matrix adjust.
Identities = 126/133 (94%), Positives = 130/133 (97%)
Query: 68 FTPPQLDPNTPSPIFGGSTGGLLRKAQVEEFYVITWESPKEQIFEMPTGGAAIMRQGPNL 127
FTPP+LDPNTPSPIF GSTGGLLRKAQVEEFYVITWESPKEQIFEMPTGGAAIMR+GPNL
Sbjct: 71 FTPPELDPNTPSPIFAGSTGGLLRKAQVEEFYVITWESPKEQIFEMPTGGAAIMREGPNL 130
Query: 128 LKLARKEQCLALGTRLRSKYKIKYQFYRVFPNGEVQYLHPKDGVYPEKVNPGRQGVGVNY 187
LKLARKEQCLALGTRLRSKYKIKYQFYRVFP+GEVQYLHPKDGVYPEKVNPGRQGVG+N
Sbjct: 131 LKLARKEQCLALGTRLRSKYKIKYQFYRVFPSGEVQYLHPKDGVYPEKVNPGRQGVGLNM 190
Query: 188 RSIGKNVSPIEHK 200
RSIGKNVSPIE K
Sbjct: 191 RSIGKNVSPIEVK 203
>pdb|3LW5|D Chain D, Improved Model Of Plant Photosystem I
Length = 138
Score = 254 bits (650), Expect = 2e-68, Method: Compositional matrix adjust.
Identities = 122/129 (94%), Positives = 126/129 (97%)
Query: 72 QLDPNTPSPIFGGSTGGLLRKAQVEEFYVITWESPKEQIFEMPTGGAAIMRQGPNLLKLA 131
+LDPNTPSPIFGGSTGGLLRKAQVEEFYVITW+SPKEQIFEMPTGGAAIMR+GPNLLKLA
Sbjct: 1 ELDPNTPSPIFGGSTGGLLRKAQVEEFYVITWDSPKEQIFEMPTGGAAIMREGPNLLKLA 60
Query: 132 RKEQCLALGTRLRSKYKIKYQFYRVFPNGEVQYLHPKDGVYPEKVNPGRQGVGVNYRSIG 191
RKEQCLALGTRLRSKYKIKYQFYRVFPNGEVQYLHPKDGVYPEKVN GRQGVG N+RSIG
Sbjct: 61 RKEQCLALGTRLRSKYKIKYQFYRVFPNGEVQYLHPKDGVYPEKVNAGRQGVGQNFRSIG 120
Query: 192 KNVSPIEHK 200
KNVSPIE K
Sbjct: 121 KNVSPIEVK 129
>pdb|2O01|D Chain D, The Structure Of A Plant Photosystem I Supercomplex At 3.4
Angstrom Resolution
Length = 138
Score = 254 bits (650), Expect = 2e-68, Method: Compositional matrix adjust.
Identities = 122/129 (94%), Positives = 126/129 (97%)
Query: 72 QLDPNTPSPIFGGSTGGLLRKAQVEEFYVITWESPKEQIFEMPTGGAAIMRQGPNLLKLA 131
+LDPNTPSPIF GSTGGLLRKAQVEEFYVITWESPKEQIFEMPTGGAAIMR+GPNLLKLA
Sbjct: 1 ELDPNTPSPIFAGSTGGLLRKAQVEEFYVITWESPKEQIFEMPTGGAAIMREGPNLLKLA 60
Query: 132 RKEQCLALGTRLRSKYKIKYQFYRVFPNGEVQYLHPKDGVYPEKVNPGRQGVGVNYRSIG 191
RKEQCLALGTRLRSKYKIKYQFYRVFP+GEVQYLHPKDGVYPEKVNPGRQGVG+N RSIG
Sbjct: 61 RKEQCLALGTRLRSKYKIKYQFYRVFPSGEVQYLHPKDGVYPEKVNPGRQGVGLNMRSIG 120
Query: 192 KNVSPIEHK 200
KNVSPIE K
Sbjct: 121 KNVSPIEVK 129
>pdb|1JB0|D Chain D, Crystal Structure Of Photosystem I: A Photosynthetic
Reaction Center And Core Antenna System From
Cyanobacteria
pdb|3PCQ|D Chain D, Femtosecond X-Ray Protein Nanocrystallography
pdb|4FE1|D Chain D, Improving The Accuracy Of Macromolecular Structure
Refinement At 7 A Resolution
Length = 138
Score = 153 bits (386), Expect = 9e-38, Method: Compositional matrix adjust.
Identities = 75/127 (59%), Positives = 92/127 (72%), Gaps = 1/127 (0%)
Query: 80 PIFGGSTGGLLRKAQVEEFYVITWESPKEQIFEMPTGGAAIMRQGPNLLKLARKEQCLAL 139
P++GGSTGGLL A EE Y ITW SPKEQ+FEMPT GAA+MR+G NL+ ARKEQCLAL
Sbjct: 8 PLYGGSTGGLLSAADTEEKYAITWTSPKEQVFEMPTAGAAVMREGENLVYFARKEQCLAL 67
Query: 140 GT-RLRSKYKIKYQFYRVFPNGEVQYLHPKDGVYPEKVNPGRQGVGVNYRSIGKNVSPIE 198
+LR + Y+ YR+FP+GE +HPKDGV+PEKVN GR+ V RSIG+N +P +
Sbjct: 68 AAQQLRPRKINDYKIYRIFPDGETVLIHPKDGVFPEKVNKGREAVNSVPRSIGQNPNPSQ 127
Query: 199 HKTELKK 205
K KK
Sbjct: 128 LKFTGKK 134
>pdb|1O8P|A Chain A, Unbound Structure Of Cscbm6-3 From Clostridium
Stercorarium
Length = 151
Score = 27.7 bits (60), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 25/52 (48%), Gaps = 4/52 (7%)
Query: 69 TPPQLDPNTPSPIFGGSTGGLLRKAQVEEFYVITWESPKEQIFEMPTGGAAI 120
TP ++ SP+ G T Q E++ + P QIF +P GG+AI
Sbjct: 7 TPANVNSGPTSPV--GGTRSAFSNIQAEDY--DSSYGPNLQIFSLPGGGSAI 54
>pdb|1NAE|A Chain A, Structure Of Cscbm6-3 From Clostridium Stercorarium In
Complex With Xylotriose
pdb|1O8S|A Chain A, Structure Of Cscbm6-3 From Clostridium Stercorarium In
Complex With Cellobiose
pdb|1OD3|A Chain A, Structure Of Cscbm6-3 From Clostridium Stercorarium In
Complex With Laminaribiose
Length = 168
Score = 27.7 bits (60), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 25/52 (48%), Gaps = 4/52 (7%)
Query: 69 TPPQLDPNTPSPIFGGSTGGLLRKAQVEEFYVITWESPKEQIFEMPTGGAAI 120
TP ++ SP+ G T Q E++ + P QIF +P GG+AI
Sbjct: 24 TPANVNSGPTSPV--GGTRSAFSNIQAEDY--DSSYGPNLQIFSLPGGGSAI 71
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
0.319 0.136 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,311,292
Number of Sequences: 62578
Number of extensions: 256450
Number of successful extensions: 444
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 438
Number of HSP's gapped (non-prelim): 7
length of query: 229
length of database: 14,973,337
effective HSP length: 95
effective length of query: 134
effective length of database: 9,028,427
effective search space: 1209809218
effective search space used: 1209809218
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)