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= 024163
(271 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4IXQ|O Chain O, Rt Fs X-ray Diffraction Of Photosystem Ii, Dark State
pdb|4IXQ|OO Chain o, Rt Fs X-ray Diffraction Of Photosystem Ii, Dark State
pdb|4IXR|O Chain O, Rt Fs X-ray Diffraction Of Photosystem Ii, First
Illuminated State
pdb|4IXR|OO Chain o, Rt Fs X-ray Diffraction Of Photosystem Ii, First
Illuminated State
Length = 272
Score = 236 bits (601), Expect = 1e-62, Method: Compositional matrix adjust.
Identities = 124/249 (49%), Positives = 168/249 (67%), Gaps = 21/249 (8%)
Query: 36 QSKTYMEVKGTGTANQCPTIDGG------VDSFAFKPGKYQAKKFCLEPTSFTVKAESVN 89
Q+ TY ++ GTG AN+CPT+D +DS Y+ + CL+PT+F VK E N
Sbjct: 29 QTLTYDDIVGTGLANKCPTLDDTARGAYPIDS----SQTYRIARLCLQPTTFLVKEEPKN 84
Query: 90 KNAPPDFQNTKLMTRLTYTLDEIEGPFEVSPDGTIKFVEKDGIDYAAVTVQLPGGERVPF 149
K +F TKL+TR T +LD+I+G +V+ DG++ FVE+DGID+ VTVQ+ GGER+P
Sbjct: 85 KRQEAEFVPTKLVTRETTSLDQIQGELKVNSDGSLTFVEEDGIDFQPVTVQMAGGERIPL 144
Query: 150 LFTIKQLVASGKPE--------NFGGEFLVPSYRGSSFLDPKGRGGSTGYDNAIALPAGG 201
LFT+K LVAS +P +F GEF VPSYR ++FLDPKGRG ++GYD+AIALP
Sbjct: 145 LFTVKNLVASTQPNVTSITTSTDFKGEFNVPSYRTANFLDPKGRGLASGYDSAIALP--- 201
Query: 202 RGDEEDLAKENIKNTSSSTGKITLSVTKSKPETGEVIGVFESLQPSDTDMGAKVPKDVKI 261
+ EE+LA+ N+K S + G+I+L+V K TGE+ G FES Q SD DMGA P +VKI
Sbjct: 202 QAKEEELARANVKRFSLTKGQISLNVAKVDGRTGEIAGTFESEQLSDDDMGAHEPHEVKI 261
Query: 262 QGIWYAQLE 270
QG++YA +E
Sbjct: 262 QGVFYASIE 270
>pdb|2AXT|O Chain O, Crystal Structure Of Photosystem Ii From
Thermosynechococcus Elongatus
pdb|2AXT|OO Chain o, Crystal Structure Of Photosystem Ii From
Thermosynechococcus Elongatus
pdb|3BZ1|O Chain O, Crystal Structure Of Cyanobacterial Photosystem Ii (Part 1
Of 2). This File Contains First Monomer Of Psii Dimer
pdb|3BZ2|O Chain O, Crystal Structure Of Cyanobacterial Photosystem Ii (Part 2
Of 2). This File Contains Second Monomer Of Psii Dimer
pdb|3PRQ|O Chain O, Crystal Structure Of Cyanobacterial Photosystem Ii In
Complex With Terbutryn (Part 1 Of 2). This File Contains
First Monomer Of Psii Dimer
pdb|3PRR|O Chain O, Crystal Structure Of Cyanobacterial Photosystem Ii In
Complex With Terbutryn (Part 2 Of 2). This File Contains
Second Monomer Of Psii Dimer
Length = 247
Score = 235 bits (600), Expect = 2e-62, Method: Compositional matrix adjust.
Identities = 124/249 (49%), Positives = 168/249 (67%), Gaps = 21/249 (8%)
Query: 36 QSKTYMEVKGTGTANQCPTIDGG------VDSFAFKPGKYQAKKFCLEPTSFTVKAESVN 89
Q+ TY ++ GTG AN+CPT+D +DS Y+ + CL+PT+F VK E N
Sbjct: 4 QTLTYDDIVGTGLANKCPTLDDTARGAYPIDS----SQTYRIARLCLQPTTFLVKEEPKN 59
Query: 90 KNAPPDFQNTKLMTRLTYTLDEIEGPFEVSPDGTIKFVEKDGIDYAAVTVQLPGGERVPF 149
K +F TKL+TR T +LD+I+G +V+ DG++ FVE+DGID+ VTVQ+ GGER+P
Sbjct: 60 KRQEAEFVPTKLVTRETTSLDQIQGELKVNSDGSLTFVEEDGIDFQPVTVQMAGGERIPL 119
Query: 150 LFTIKQLVASGKPE--------NFGGEFLVPSYRGSSFLDPKGRGGSTGYDNAIALPAGG 201
LFT+K LVAS +P +F GEF VPSYR ++FLDPKGRG ++GYD+AIALP
Sbjct: 120 LFTVKNLVASTQPNVTSITTSTDFKGEFNVPSYRTANFLDPKGRGLASGYDSAIALP--- 176
Query: 202 RGDEEDLAKENIKNTSSSTGKITLSVTKSKPETGEVIGVFESLQPSDTDMGAKVPKDVKI 261
+ EE+LA+ N+K S + G+I+L+V K TGE+ G FES Q SD DMGA P +VKI
Sbjct: 177 QAKEEELARANVKRFSLTKGQISLNVAKVDGRTGEIAGTFESEQLSDDDMGAHEPHEVKI 236
Query: 262 QGIWYAQLE 270
QG++YA +E
Sbjct: 237 QGVFYASIE 245
>pdb|1S5L|O Chain O, Architecture Of The Photosynthetic Oxygen Evolving Center
pdb|1S5L|OO Chain o, Architecture Of The Photosynthetic Oxygen Evolving Center
pdb|3KZI|O Chain O, Crystal Structure Of Monomeric Form Of Cyanobacterial
Photosystem Ii
pdb|4FBY|O Chain O, Fs X-Ray Diffraction Of Photosystem Ii
pdb|4FBY|FF Chain f, Fs X-Ray Diffraction Of Photosystem Ii
Length = 246
Score = 235 bits (600), Expect = 2e-62, Method: Compositional matrix adjust.
Identities = 124/249 (49%), Positives = 168/249 (67%), Gaps = 21/249 (8%)
Query: 36 QSKTYMEVKGTGTANQCPTIDGG------VDSFAFKPGKYQAKKFCLEPTSFTVKAESVN 89
Q+ TY ++ GTG AN+CPT+D +DS Y+ + CL+PT+F VK E N
Sbjct: 3 QTLTYDDIVGTGLANKCPTLDDTARGAYPIDS----SQTYRIARLCLQPTTFLVKEEPKN 58
Query: 90 KNAPPDFQNTKLMTRLTYTLDEIEGPFEVSPDGTIKFVEKDGIDYAAVTVQLPGGERVPF 149
K +F TKL+TR T +LD+I+G +V+ DG++ FVE+DGID+ VTVQ+ GGER+P
Sbjct: 59 KRQEAEFVPTKLVTRETTSLDQIQGELKVNSDGSLTFVEEDGIDFQPVTVQMAGGERIPL 118
Query: 150 LFTIKQLVASGKPE--------NFGGEFLVPSYRGSSFLDPKGRGGSTGYDNAIALPAGG 201
LFT+K LVAS +P +F GEF VPSYR ++FLDPKGRG ++GYD+AIALP
Sbjct: 119 LFTVKNLVASTQPNVTSITTSTDFKGEFNVPSYRTANFLDPKGRGLASGYDSAIALP--- 175
Query: 202 RGDEEDLAKENIKNTSSSTGKITLSVTKSKPETGEVIGVFESLQPSDTDMGAKVPKDVKI 261
+ EE+LA+ N+K S + G+I+L+V K TGE+ G FES Q SD DMGA P +VKI
Sbjct: 176 QAKEEELARANVKRFSLTKGQISLNVAKVDGRTGEIAGTFESEQLSDDDMGAHEPHEVKI 235
Query: 262 QGIWYAQLE 270
QG++YA +E
Sbjct: 236 QGVFYASIE 244
>pdb|3ARC|O Chain O, Crystal Structure Of Oxygen-Evolving Photosystem Ii At 1.9
Angstrom Resolution
pdb|3ARC|OO Chain o, Crystal Structure Of Oxygen-Evolving Photosystem Ii At 1.9
Angstrom Resolution
Length = 243
Score = 233 bits (595), Expect = 7e-62, Method: Compositional matrix adjust.
Identities = 123/246 (50%), Positives = 166/246 (67%), Gaps = 21/246 (8%)
Query: 39 TYMEVKGTGTANQCPTIDGG------VDSFAFKPGKYQAKKFCLEPTSFTVKAESVNKNA 92
TY ++ GTG AN+CPT+D +DS Y+ + CL+PT+F VK E NK
Sbjct: 3 TYDDIVGTGLANKCPTLDDTARGAYPIDS----SQTYRIARLCLQPTTFLVKEEPKNKRQ 58
Query: 93 PPDFQNTKLMTRLTYTLDEIEGPFEVSPDGTIKFVEKDGIDYAAVTVQLPGGERVPFLFT 152
+F TKL+TR T +LD+I+G +V+ DG++ FVE+DGID+ VTVQ+ GGER+P LFT
Sbjct: 59 EAEFVPTKLVTRETTSLDQIQGELKVNSDGSLTFVEEDGIDFQPVTVQMAGGERIPLLFT 118
Query: 153 IKQLVASGKPE--------NFGGEFLVPSYRGSSFLDPKGRGGSTGYDNAIALPAGGRGD 204
+K LVAS +P +F GEF VPSYR ++FLDPKGRG ++GYD+AIALP +
Sbjct: 119 VKNLVASTQPNVTSITTSTDFKGEFNVPSYRTANFLDPKGRGLASGYDSAIALP---QAK 175
Query: 205 EEDLAKENIKNTSSSTGKITLSVTKSKPETGEVIGVFESLQPSDTDMGAKVPKDVKIQGI 264
EE+LA+ N+K S + G+I+L+V K TGE+ G FES Q SD DMGA P +VKIQG+
Sbjct: 176 EEELARANVKRFSLTKGQISLNVAKVDGRTGEIAGTFESEQLSDDDMGAHEPHEVKIQGV 235
Query: 265 WYAQLE 270
+YA +E
Sbjct: 236 FYASIE 241
>pdb|3A0B|O Chain O, Crystal Structure Of Br-Substituted Photosystem Ii Complex
pdb|3A0B|OO Chain o, Crystal Structure Of Br-Substituted Photosystem Ii Complex
pdb|3A0H|O Chain O, Crystal Structure Of I-Substituted Photosystem Ii Complex
pdb|3A0H|OO Chain o, Crystal Structure Of I-Substituted Photosystem Ii Complex
Length = 242
Score = 233 bits (595), Expect = 7e-62, Method: Compositional matrix adjust.
Identities = 123/246 (50%), Positives = 166/246 (67%), Gaps = 21/246 (8%)
Query: 39 TYMEVKGTGTANQCPTIDGG------VDSFAFKPGKYQAKKFCLEPTSFTVKAESVNKNA 92
TY ++ GTG AN+CPT+D +DS Y+ + CL+PT+F VK E NK
Sbjct: 3 TYDDIVGTGLANKCPTLDDTARGAYPIDS----SQTYRIARLCLQPTTFLVKEEPKNKRQ 58
Query: 93 PPDFQNTKLMTRLTYTLDEIEGPFEVSPDGTIKFVEKDGIDYAAVTVQLPGGERVPFLFT 152
+F TKL+TR T +LD+I+G +V+ DG++ FVE+DGID+ VTVQ+ GGER+P LFT
Sbjct: 59 EAEFVPTKLVTRETTSLDQIQGELKVNSDGSLTFVEEDGIDFQPVTVQMAGGERIPLLFT 118
Query: 153 IKQLVASGKPE--------NFGGEFLVPSYRGSSFLDPKGRGGSTGYDNAIALPAGGRGD 204
+K LVAS +P +F GEF VPSYR ++FLDPKGRG ++GYD+AIALP +
Sbjct: 119 VKNLVASTQPNVTSITTSTDFKGEFNVPSYRTANFLDPKGRGLASGYDSAIALP---QAK 175
Query: 205 EEDLAKENIKNTSSSTGKITLSVTKSKPETGEVIGVFESLQPSDTDMGAKVPKDVKIQGI 264
EE+LA+ N+K S + G+I+L+V K TGE+ G FES Q SD DMGA P +VKIQG+
Sbjct: 176 EEELARANVKRFSLTKGQISLNVAKVDGRTGEIAGTFESEQLSDDDMGAHEPHEVKIQGV 235
Query: 265 WYAQLE 270
+YA +E
Sbjct: 236 FYASIE 241
>pdb|1PC3|A Chain A, Crystal Structure Of The Extracellular Phosphate Abc
Transport Receptor (Psts-1) And Immunodominant Antigen
Of M. Tuberculosis.
pdb|1PC3|B Chain B, Crystal Structure Of The Extracellular Phosphate Abc
Transport Receptor (Psts-1) And Immunodominant Antigen
Of M. Tuberculosis
Length = 350
Score = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 36/146 (24%), Positives = 54/146 (36%), Gaps = 23/146 (15%)
Query: 54 TIDGGVDSFAFKPGKYQAKKFCLEPTSFTVKAESVNKNAPPDFQNTKLMTRLTYTLDEIE 113
T++ G G A K + + + A+ VN N P ++ KL ++ + +
Sbjct: 75 TVNIGASDAYLSEGDMAAHKGLMN-IALAISAQQVNYNLPGVSEHLKLNGKVLAAMYQ-- 131
Query: 114 GPFEVSPDGTIKFVEKDGIDYAAVTVQLPGGERVPFLFTIKQLVASGKPENFGGEFLVPS 173
GTIK + I V LPG VP + + G FL
Sbjct: 132 --------GTIKTWDDPQIAALNPGVNLPGTAVVPL----------HRSDGSGDTFLFTQ 173
Query: 174 YRGSSFLDPKGRGGSTGYDNAIALPA 199
Y S DP+G G S G+ + PA
Sbjct: 174 YL--SKQDPEGWGKSPGFGTTVDFPA 197
>pdb|4BAS|A Chain A, Structure Of The Arl6 Bbs3 Small Gtpase From Trypanosoma
Brucei With Bound Nucleotide Analogue Gppnp
Length = 199
Score = 29.3 bits (64), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 12/21 (57%), Positives = 16/21 (76%)
Query: 140 QLPGGERVPFLFTIKQLVASG 160
+LPGG RVPFLF ++ A+G
Sbjct: 121 ELPGGGRVPFLFFANKMDAAG 141
>pdb|3QB0|A Chain A, Crystal Structure Of Actin-Related Protein Arp4 From S.
Cerevisiae Complexed With Atp
pdb|3QB0|B Chain B, Crystal Structure Of Actin-Related Protein Arp4 From S.
Cerevisiae Complexed With Atp
pdb|3QB0|C Chain C, Crystal Structure Of Actin-Related Protein Arp4 From S.
Cerevisiae Complexed With Atp
pdb|3QB0|D Chain D, Crystal Structure Of Actin-Related Protein Arp4 From S.
Cerevisiae Complexed With Atp
Length = 498
Score = 29.3 bits (64), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 28/56 (50%), Gaps = 4/56 (7%)
Query: 212 NIKNTSSSTGKITLSVTKSKPETGEVIG----VFESLQPSDTDMGAKVPKDVKIQG 263
N +T + TGK L K E E+IG V+ S+ SD D+ A + +V + G
Sbjct: 366 NSADTPNETGKRPLEEEKPPKENNELIGLADLVYSSIMSSDVDLRATLAHNVVLTG 421
>pdb|2J44|A Chain A, Alpha-Glucan Binding By A Streptococcal Virulence Factor
Length = 217
Score = 27.7 bits (60), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 33/76 (43%), Gaps = 2/76 (2%)
Query: 107 YTLDEIEGPFEVSPDGTIKFVEKDGIDYA-AVTVQLPGGERVPFLFTIKQLVASGKPENF 165
+T D++E P E P+G + F + DY + V+L G + F I +
Sbjct: 22 WTWDDVEKPSENWPNGALSFKDAKKDDYGYYLDVKLKGEQAKKISFLINNTAGKNLTGDK 81
Query: 166 GGEFLVPSYRGSSFLD 181
E LVP ++LD
Sbjct: 82 SVEKLVPK-MNEAWLD 96
>pdb|2YA1|A Chain A, Product Complex Of A Multi-Modular Glycogen-Degrading
Pneumococcal Virulence Factor Spua
Length = 1014
Score = 27.3 bits (59), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 33/76 (43%), Gaps = 2/76 (2%)
Query: 107 YTLDEIEGPFEVSPDGTIKFVEKDGIDYA-AVTVQLPGGERVPFLFTIKQLVASGKPENF 165
+T D++E P E P+G + F + DY + V+L G + F I +
Sbjct: 27 WTWDDVEKPSENWPNGALSFKDAKKDDYGYYLDVKLKGEQAKKISFLINNTAGKNLTGDK 86
Query: 166 GGEFLVPSYRGSSFLD 181
E LVP ++LD
Sbjct: 87 SVEKLVPK-MNEAWLD 101
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
0.311 0.133 0.382
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,391,364
Number of Sequences: 62578
Number of extensions: 387873
Number of successful extensions: 617
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 596
Number of HSP's gapped (non-prelim): 16
length of query: 271
length of database: 14,973,337
effective HSP length: 97
effective length of query: 174
effective length of database: 8,903,271
effective search space: 1549169154
effective search space used: 1549169154
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 51 (24.3 bits)