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= 025928
(246 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 = 277 bits (708), Expect = 5e-75, Method: Compositional matrix adjust.
Identities = 134/186 (72%), Positives = 153/186 (82%), Gaps = 16/186 (8%)
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 --RPPYYFLSVLTRTADGDEG------------GKLYICKAQAGDKRWFKGTRKYVESTA 240
YY ++VLTRTADGDEG GKLYICKAQAGDKRWFKG +K+VES
Sbjct: 125 VDGKQYYSITVLTRTADGDEGGKHQVIAATVKDGKLYICKAQAGDKRWFKGAKKFVESAT 184
Query: 241 SSFSVA 246
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 = 259 bits (662), Expect = 9e-70, Method: Compositional matrix adjust.
Identities = 126/177 (71%), Positives = 145/177 (81%), Gaps = 16/177 (9%)
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 SVLTRTADGDEG------------GKLYICKAQAGDKRWFKGTRKYVESTASSFSVA 246
S+LTRTADG+EG GKLYICKAQAGDKRWFKG +K+VE+TA+SFS+A
Sbjct: 121 SILTRTADGNEGGKHQLVTATVNDGKLYICKAQAGDKRWFKGAKKFVENTATSFSLA 177
>pdb|2XB3|A Chain A, The Structure Of Cyanobacterial Psbp
Length = 165
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 41/160 (25%), Positives = 71/160 (44%), Gaps = 25/160 (15%)
Query: 100 DGFKLSIPSKWNPSKEREFPGQVLRYEDNFDSNSNVSVII-TPTDKKSITDYGSPEEFLS 158
DG++ P W + E P V+ + D ++ NVSV++ T KS+ + GSPEE
Sbjct: 16 DGYEFLYPRGW-VQVQVEDPVDVV-FHDIIETTENVSVVVNTVASTKSLEELGSPEEVGD 73
Query: 159 KVDYLLGKQAYSGKTSSEGGFDPDAVATANILEASVRPPYYFLSVLTRTADGDEG----- 213
++ + + SG++S A+ A +A + Y +T DG+
Sbjct: 74 RLLRNIIAPSESGRSS--------ALIAATSQKADDKTYYILEYAVTLPGDGNTAQQRHN 125
Query: 214 --------GKLYICKAQAGDKRWFKGTRKYVESTASSFSV 245
GK+Y A ++RW K ++ ++ SSF+V
Sbjct: 126 LSSIAVSRGKVYTLSVSAPEERWPKVEDQF-KTIVSSFTV 164
>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 = 28.9 bits (63), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 21/38 (55%)
Query: 168 AYSGKTSSEGGFDPDAVATANILEASVRPPYYFLSVLT 205
A SG+ E GF PDAVA AN+ A + +L + T
Sbjct: 27 AASGQLRLEDGFHPDAVAWANLTNAIRETGWAYLDLST 64
>pdb|3FGW|A Chain A, One Chain Form Of The 66.3 Kda Protein
Length = 559
Score = 28.9 bits (63), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 24/41 (58%), Gaps = 1/41 (2%)
Query: 152 SPEEFLSKVDYLLGKQAYSGKTSSEGGFDPDAVATANILEA 192
+P+ +S+ LL A SG+ E GF PDAVA AN+ A
Sbjct: 12 NPDPPVSRTRSLLLDAA-SGQLRLEDGFHPDAVAWANLTNA 51
>pdb|3FBX|A Chain A, Crystal Structure Of The Lysosomal 66.3 Kda Protein From
Mouse Solved By S-Sad
Length = 559
Score = 28.9 bits (63), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 24/41 (58%), Gaps = 1/41 (2%)
Query: 152 SPEEFLSKVDYLLGKQAYSGKTSSEGGFDPDAVATANILEA 192
+P+ +S+ LL A SG+ E GF PDAVA AN+ A
Sbjct: 12 NPDPPVSRTRSLLLDAA-SGQLRLEDGFHPDAVAWANLTNA 51
>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 = 27.7 bits (60), Expect = 6.7, 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: 7,648,052
Number of Sequences: 62578
Number of extensions: 319137
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: 472
Number of HSP's gapped (non-prelim): 9
length of query: 246
length of database: 14,973,337
effective HSP length: 96
effective length of query: 150
effective length of database: 8,965,849
effective search space: 1344877350
effective search space used: 1344877350
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)