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= 025092
(258 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2VU4|A Chain A, Structure Of Psbp Protein From Spinacia Oleracea At 1.98 A
Resolution
Length = 190
Score = 304 bits (778), Expect = 4e-83, Method: Compositional matrix adjust.
Identities = 143/186 (76%), Positives = 163/186 (87%), Gaps = 4/186 (2%)
Query: 77 AYGESANVFGKPKTNTDFLPYNGDGFKLSIPSKWNPSKEREFPGQVLRYEDNFDSNSNVS 136
AYGE+ANVFGKPK NT+F+PYNGDGFKL +PSKWNPSKE+EFPGQVLRYEDNFD+ SN+S
Sbjct: 5 AYGEAANVFGKPKKNTEFMPYNGDGFKLLVPSKWNPSKEKEFPGQVLRYEDNFDATSNLS 64
Query: 137 VIITPTDKKSITDYGSPEEFLSKVDYLLGKQAYSGKTSSEGGFDPDAVATANILEASV-- 194
V++ PTDKKSITD+GSPE+FLS+VDYLLGKQAY GKT SEGGFD VA+AN+LE+S
Sbjct: 65 VLVQPTDKKSITDFGSPEDFLSQVDYLLGKQAYFGKTDSEGGFDSGVVASANVLESSTPV 124
Query: 195 --RPPYYFLSVLTRTADGDEGGKHQLITATVKGGKLYICKAQAGDKRWFKGTRKYVESTA 252
YY ++VLTRTADGDEGGKHQ+I ATVK GKLYICKAQAGDKRWFKG +K+VES
Sbjct: 125 VDGKQYYSITVLTRTADGDEGGKHQVIAATVKDGKLYICKAQAGDKRWFKGAKKFVESAT 184
Query: 253 SSFSVA 258
SSFSVA
Sbjct: 185 SSFSVA 190
>pdb|1V2B|A Chain A, Crystal Structure Of Psbp Protein In The Oxygen-Evolving
Complex Of Photosystem Ii From Higher Plants
pdb|1V2B|B Chain B, Crystal Structure Of Psbp Protein In The Oxygen-Evolving
Complex Of Photosystem Ii From Higher Plants
Length = 177
Score = 287 bits (734), Expect = 4e-78, Method: Compositional matrix adjust.
Identities = 135/177 (76%), Positives = 155/177 (87%), Gaps = 4/177 (2%)
Query: 86 GKPKTNTDFLPYNGDGFKLSIPSKWNPSKEREFPGQVLRYEDNFDSNSNVSVIITPTDKK 145
GKPKT+TDF YNGDGFKL IPSKWNP+KE E+PGQVLR+EDNFD+ SNV V ITPTDKK
Sbjct: 1 GKPKTDTDFQTYNGDGFKLQIPSKWNPNKEVEYPGQVLRFEDNFDATSNVIVAITPTDKK 60
Query: 146 SITDYGSPEEFLSKVDYLLGKQAYSGKTSSEGGFDPDAVATANILEASVRP----PYYFL 201
SITD+GSPE+FLS+VDYLLG+QAYSGKT SEGGF+ DAVA AN+LE S YY+L
Sbjct: 61 SITDFGSPEQFLSQVDYLLGRQAYSGKTDSEGGFESDAVAIANVLETSTAEVGGKQYYYL 120
Query: 202 SVLTRTADGDEGGKHQLITATVKGGKLYICKAQAGDKRWFKGTRKYVESTASSFSVA 258
S+LTRTADG+EGGKHQL+TATV GKLYICKAQAGDKRWFKG +K+VE+TA+SFS+A
Sbjct: 121 SILTRTADGNEGGKHQLVTATVNDGKLYICKAQAGDKRWFKGAKKFVENTATSFSLA 177
>pdb|2XB3|A Chain A, The Structure Of Cyanobacterial Psbp
Length = 165
Score = 47.4 bits (111), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 44/160 (27%), Positives = 76/160 (47%), Gaps = 13/160 (8%)
Query: 100 DGFKLSIPSKWNPSKEREFPGQVLRYEDNFDSNSNVSVII-TPTDKKSITDYGSPEEFLS 158
DG++ P W + E P V+ + D ++ NVSV++ T KS+ + GSPEE
Sbjct: 16 DGYEFLYPRGW-VQVQVEDPVDVV-FHDIIETTENVSVVVNTVASTKSLEELGSPEEVGD 73
Query: 159 KVDYLLGKQAYSGKTSSEGGFDPDAVATANILEASVRPPYYFLSVLTRTADGDEGG-KHQ 217
++ + + SG++S A+ A +A + Y +T DG+ +H
Sbjct: 74 RLLRNIIAPSESGRSS--------ALIAATSQKADDKTYYILEYAVTLPGDGNTAQQRHN 125
Query: 218 LITATVKGGKLYICKAQAGDKRWFKGTRKYVESTASSFSV 257
L + V GK+Y A ++RW K ++ ++ SSF+V
Sbjct: 126 LSSIAVSRGKVYTLSVSAPEERWPKVEDQF-KTIVSSFTV 164
>pdb|2LNJ|A Chain A, Solution Structure Of Cyanobacterial Psbp (Cyanop) From
Synechocystis Sp. Pcc 6803
Length = 170
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 45/165 (27%), Positives = 70/165 (42%), Gaps = 24/165 (14%)
Query: 100 DGFKLSIPSKW-NPSKEREFPGQVLRYEDNFDSNSNVSVIIT--PTDKKSITDYGSPEEF 156
DG++ P+ W + PG + + D + + N+SVII+ P+DK ++TD G+
Sbjct: 22 DGYEFLYPNGWIGVDVKGASPGVDVVFRDLIERDENLSVIISEIPSDK-TLTDLGTA--- 77
Query: 157 LSKVDYLLGKQAYSGKTSSEGGFDPDAVATANILEASVRPP----YYFLSVLTRTADGDE 212
+ V Y K +S+G A ++ A R YY L R GD
Sbjct: 78 -TDVGYRFMKTV---NDASQGD------RQAELINAEARDEDGQVYYTLEY--RVLVGDN 125
Query: 213 GGKHQLITATVKGGKLYICKAQAGDKRWFKGTRKYVESTASSFSV 257
+H L + T GKL + RW + ++ ASSF V
Sbjct: 126 VERHDLASVTTNRGKLITFDLSTAEDRW-DTVKSLFDTVASSFHV 169
>pdb|3FGW|A Chain A, One Chain Form Of The 66.3 Kda Protein
Length = 559
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 40/81 (49%), Gaps = 3/81 (3%)
Query: 152 SPEEFLSKVDYLLGKQAYSGKTSSEGGFDPDAVATANILEASVRPPYYFLSVLT--RTAD 209
+P+ +S+ LL A SG+ E GF PDAVA AN+ A + +L + T R D
Sbjct: 12 NPDPPVSRTRSLLLDAA-SGQLRLEDGFHPDAVAWANLTNAIRETGWAYLDLSTNGRYND 70
Query: 210 GDEGGKHQLITATVKGGKLYI 230
+ ++ A+V +Y+
Sbjct: 71 SLQAYAAGVVEASVSEELIYM 91
>pdb|3FBX|A Chain A, Crystal Structure Of The Lysosomal 66.3 Kda Protein From
Mouse Solved By S-Sad
Length = 559
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 40/81 (49%), Gaps = 3/81 (3%)
Query: 152 SPEEFLSKVDYLLGKQAYSGKTSSEGGFDPDAVATANILEASVRPPYYFLSVLT--RTAD 209
+P+ +S+ LL A SG+ E GF PDAVA AN+ A + +L + T R D
Sbjct: 12 NPDPPVSRTRSLLLDAA-SGQLRLEDGFHPDAVAWANLTNAIRETGWAYLDLSTNGRYND 70
Query: 210 GDEGGKHQLITATVKGGKLYI 230
+ ++ A+V +Y+
Sbjct: 71 SLQAYAAGVVEASVSEELIYM 91
>pdb|3FGR|A Chain A, Two Chain Form Of The 66.3 Kda Protein At 1.8 Angstroem
pdb|3FGT|A Chain A, Two Chain Form Of The 66.3 Kda Protein From Mouse Lacking
The Linker Peptide
Length = 202
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 32/65 (49%), Gaps = 2/65 (3%)
Query: 168 AYSGKTSSEGGFDPDAVATANILEASVRPPYYFLSVLT--RTADGDEGGKHQLITATVKG 225
A SG+ E GF PDAVA AN+ A + +L + T R D + ++ A+V
Sbjct: 27 AASGQLRLEDGFHPDAVAWANLTNAIRETGWAYLDLSTNGRYNDSLQAYAAGVVEASVSE 86
Query: 226 GKLYI 230
+Y+
Sbjct: 87 ELIYM 91
>pdb|3ODP|A Chain A, Crystal Structure Of A Putative Tagatose-6-Phosphate
KetoseALDOSE Isomerase (Nt01cx_0292) From Clostridium
Novyi Nt At 2.35 A Resolution
Length = 393
Score = 28.1 bits (61), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 29/60 (48%), Gaps = 7/60 (11%)
Query: 124 RYEDNF-DSNSNVSVIITPTDKKSITDYGSPEEFLSKVDYLLGKQAYSGKTSSEGGFDPD 182
YED + NS+ + I +++ D FLS +DYLL Q Y+ S E G PD
Sbjct: 319 EYEDKLIEDNSDYFIAINKEEQEYEDD-----SFLS-LDYLLNAQXYAFINSXELGIGPD 372
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
0.313 0.128 0.370
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,034,776
Number of Sequences: 62578
Number of extensions: 337129
Number of successful extensions: 482
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 473
Number of HSP's gapped (non-prelim): 9
length of query: 258
length of database: 14,973,337
effective HSP length: 97
effective length of query: 161
effective length of database: 8,903,271
effective search space: 1433426631
effective search space used: 1433426631
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 50 (23.9 bits)