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= 020035
(332 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ZD2|A Chain A, D202k Mutant Of P. Denitrificans Atp12p
pdb|2ZD2|B Chain B, D202k Mutant Of P. Denitrificans Atp12p
Length = 234
Score = 75.1 bits (183), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 55/210 (26%), Positives = 85/210 (40%), Gaps = 7/210 (3%)
Query: 93 GKRFYEKVSTREADDGNGWTVMLDYRTLKTPSKRPLKLPTLGLAKAIGAEWDYQQTDGIR 152
+RF+ V + + GW V+LD R L+TP K+PL+LPT LA AI EW Q + I
Sbjct: 5 ARRFWASVGIHKEE--GGWAVLLDERPLRTPGKQPLRLPTEALALAIAEEWQAVQ-EVID 61
Query: 153 PFMMPLMKLACTALERVPLTRPKIIEHLMKKFNQDLVFCRAPADNDLTSGVHERQVQKID 212
P MPL + A +A+E+V + L DL+ RA A L Q + D
Sbjct: 62 PNAMPLTRSANSAIEKVAPQFDAVAAMLGDYGGTDLLSYRADAPEALVRA----QAEGWD 117
Query: 213 PLLKWVESEFGFKPVVYSSFFGGKQEDGLIKTVENLMKKTDDYELXXXXXXXXXXXXXXX 272
PL+ W +E + Q+ ++ + + D + L
Sbjct: 118 PLIDWAATELRAPLRITHGVIPVPQDPVVLLKLRAEVASLDPFGLTALHDLVTLPGSLIL 177
Query: 273 XXGIFRGKXXXXXXXXXXXXXXDLQVDKWG 302
+ RG+ + Q ++WG
Sbjct: 178 GLAVIRGRIDAPTAHALSRIKEEFQAERWG 207
>pdb|2P4X|A Chain A, Crystal Structure Of Atp12 From Paracoccus Denitrificans
pdb|2P4X|B Chain B, Crystal Structure Of Atp12 From Paracoccus Denitrificans
pdb|2R31|A Chain A, Crystal Structure Of Atp12p From Paracoccus Denitrificans
Length = 239
Score = 75.1 bits (183), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 55/210 (26%), Positives = 85/210 (40%), Gaps = 7/210 (3%)
Query: 93 GKRFYEKVSTREADDGNGWTVMLDYRTLKTPSKRPLKLPTLGLAKAIGAEWDYQQTDGIR 152
+RF+ V + + GW V+LD R L+TP K+PL+LPT LA AI EW Q + I
Sbjct: 9 ARRFWASVGIHKEE--GGWAVLLDERPLRTPGKQPLRLPTEALALAIAEEWQAVQ-EVID 65
Query: 153 PFMMPLMKLACTALERVPLTRPKIIEHLMKKFNQDLVFCRAPADNDLTSGVHERQVQKID 212
P MPL + A +A+E+V + L DL+ RA A L Q + D
Sbjct: 66 PNAMPLTRSANSAIEKVAPQFDAVAAMLGDYGGTDLLSYRADAPEALVRA----QAEGWD 121
Query: 213 PLLKWVESEFGFKPVVYSSFFGGKQEDGLIKTVENLMKKTDDYELXXXXXXXXXXXXXXX 272
PL+ W +E + Q+ ++ + + D + L
Sbjct: 122 PLIDWAATELRAPLRITHGVIPVPQDPVVLLKLRAEVASLDPFGLTALHDLVTLPGSLIL 181
Query: 273 XXGIFRGKXXXXXXXXXXXXXXDLQVDKWG 302
+ RG+ + Q ++WG
Sbjct: 182 GLAVIRGRIDAPTAHALSRIDEEFQAERWG 211
>pdb|2R6I|A Chain A, Crystal Structure Of Atu1473 Protein, A Putative Chaperone
From Agrobacterium Tumefaciens
pdb|2R6I|B Chain B, Crystal Structure Of Atu1473 Protein, A Putative Chaperone
From Agrobacterium Tumefaciens
Length = 284
Score = 61.6 bits (148), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 45/160 (28%), Positives = 81/160 (50%), Gaps = 6/160 (3%)
Query: 94 KRFYEKVSTREADDGNGWTVMLDYRTLKTPSKRPLKLPTLGLAKAIGAEWDYQQTDGIRP 153
KRFY+ V+ + ++G G+T++LD + L+TP+K+PL P+ LA + EWD Q+ + + P
Sbjct: 52 KRFYKDVTVADVEEG-GFTILLDGKPLRTPAKKPLVAPSRALADLLRDEWDAQK-EVVNP 109
Query: 154 FMMPLMKLACTALERVPLTRPKIIEHLMKKFNQDLVFCRAPADNDLTSGVHERQVQKIDP 213
+ P+ + TA++ + + E +++ + DL+ RA L + RQ DP
Sbjct: 110 VVXPVSRHVNTAIDGIASDTQAVFEDILRFSSSDLLCYRAGDPEALVA----RQTDYWDP 165
Query: 214 LLKWVESEFGFKPVVYSSFFGGKQEDGLIKTVENLMKKTD 253
+L W + G + ++ Q I +KK D
Sbjct: 166 VLDWATNVLGARFILVEGVXHRDQPREAIAAFAVTLKKYD 205
>pdb|4GEW|A Chain A, Crystal Structure Of Tdp2 From C. Elegans
Length = 362
Score = 31.2 bits (69), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 28/54 (51%), Gaps = 1/54 (1%)
Query: 148 TDGIRPFMMPLMKLACTALE-RVPLTRPKIIEHLMKKFNQDLVFCRAPADNDLT 200
+ ++ F + +M L+ R LTR K + H++K N D++F + D DL
Sbjct: 112 AEDLKGFEVSVMSWNIDGLDGRSLLTRMKAVAHIVKNVNPDILFLQEVVDRDLA 165
>pdb|4FVA|A Chain A, Crystal Structure Of Truncated Caenorhabditis Elegans Tdp2
pdb|4FVA|B Chain B, Crystal Structure Of Truncated Caenorhabditis Elegans Tdp2
pdb|4FVA|C Chain C, Crystal Structure Of Truncated Caenorhabditis Elegans Tdp2
pdb|4FVA|D Chain D, Crystal Structure Of Truncated Caenorhabditis Elegans Tdp2
Length = 256
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 24/96 (25%), Positives = 43/96 (44%), Gaps = 10/96 (10%)
Query: 148 TDGIRPFMMPLMKLACTALE-RVPLTRPKIIEHLMKKFNQDLVFCRAPADNDLTSGVHER 206
+ ++ F + +M L+ R LTR K + H++K N D++F + D DL
Sbjct: 6 AEDLKGFEVSVMSWNIDGLDGRSLLTRMKAVAHIVKNVNPDILFLQEVVDRDLAP----- 60
Query: 207 QVQKIDPLLKWVESEFG---FKPVVYSSFFGGKQED 239
+ K+ L K S G + ++ S F ++ D
Sbjct: 61 -IDKLQSLYKIYYSNKGCQYYTAILVSKMFDVEKHD 95
>pdb|3OFL|A Chain A, Crystal Structure Of Humanpapillomavirus18 (Hpv18) Capsid
L1 Pentamers Bound To Heparin Oligosaccharides
pdb|3OFL|B Chain B, Crystal Structure Of Humanpapillomavirus18 (Hpv18) Capsid
L1 Pentamers Bound To Heparin Oligosaccharides
pdb|3OFL|C Chain C, Crystal Structure Of Humanpapillomavirus18 (Hpv18) Capsid
L1 Pentamers Bound To Heparin Oligosaccharides
pdb|3OFL|D Chain D, Crystal Structure Of Humanpapillomavirus18 (Hpv18) Capsid
L1 Pentamers Bound To Heparin Oligosaccharides
pdb|3OFL|E Chain E, Crystal Structure Of Humanpapillomavirus18 (Hpv18) Capsid
L1 Pentamers Bound To Heparin Oligosaccharides
pdb|3OFL|F Chain F, Crystal Structure Of Humanpapillomavirus18 (Hpv18) Capsid
L1 Pentamers Bound To Heparin Oligosaccharides
pdb|3OFL|G Chain G, Crystal Structure Of Humanpapillomavirus18 (Hpv18) Capsid
L1 Pentamers Bound To Heparin Oligosaccharides
pdb|3OFL|H Chain H, Crystal Structure Of Humanpapillomavirus18 (Hpv18) Capsid
L1 Pentamers Bound To Heparin Oligosaccharides
pdb|3OFL|I Chain I, Crystal Structure Of Humanpapillomavirus18 (Hpv18) Capsid
L1 Pentamers Bound To Heparin Oligosaccharides
pdb|3OFL|J Chain J, Crystal Structure Of Humanpapillomavirus18 (Hpv18) Capsid
L1 Pentamers Bound To Heparin Oligosaccharides
pdb|3OFL|K Chain K, Crystal Structure Of Humanpapillomavirus18 (Hpv18) Capsid
L1 Pentamers Bound To Heparin Oligosaccharides
pdb|3OFL|L Chain L, Crystal Structure Of Humanpapillomavirus18 (Hpv18) Capsid
L1 Pentamers Bound To Heparin Oligosaccharides
pdb|3OFL|M Chain M, Crystal Structure Of Humanpapillomavirus18 (Hpv18) Capsid
L1 Pentamers Bound To Heparin Oligosaccharides
pdb|3OFL|N Chain N, Crystal Structure Of Humanpapillomavirus18 (Hpv18) Capsid
L1 Pentamers Bound To Heparin Oligosaccharides
pdb|3OFL|O Chain O, Crystal Structure Of Humanpapillomavirus18 (Hpv18) Capsid
L1 Pentamers Bound To Heparin Oligosaccharides
Length = 427
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 31/80 (38%), Gaps = 3/80 (3%)
Query: 91 IVGKRFYEKVSTREADDGNGWTVMLDYRTLKTPSKRPLKLPTLGLAKAIGAEWDYQQTDG 150
+ G FY K+ E+ V D R + + +L LG A AIG W
Sbjct: 98 LSGHPFYNKLDDTESSHAATSNVSEDVRDNVSVDYKQTQLCILGCAPAIGEHWAKGTASK 157
Query: 151 IRPFM---MPLMKLACTALE 167
RP P ++L T LE
Sbjct: 158 SRPLSQGDCPPLELKNTVLE 177
>pdb|2R5I|A Chain A, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 18
pdb|2R5I|B Chain B, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 18
pdb|2R5I|C Chain C, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 18
pdb|2R5I|D Chain D, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 18
pdb|2R5I|E Chain E, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 18
pdb|2R5I|F Chain F, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 18
pdb|2R5I|G Chain G, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 18
pdb|2R5I|H Chain H, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 18
pdb|2R5I|I Chain I, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 18
pdb|2R5I|J Chain J, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 18
pdb|2R5I|K Chain K, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 18
pdb|2R5I|L Chain L, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 18
pdb|2R5I|M Chain M, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 18
pdb|2R5I|N Chain N, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 18
pdb|2R5I|O Chain O, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 18
Length = 428
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 31/80 (38%), Gaps = 3/80 (3%)
Query: 91 IVGKRFYEKVSTREADDGNGWTVMLDYRTLKTPSKRPLKLPTLGLAKAIGAEWDYQQTDG 150
+ G FY K+ E+ V D R + + +L LG A AIG W
Sbjct: 98 LSGHPFYNKLDDTESSHAATSNVSEDVRDNVSVDYKQTQLCILGCAPAIGEHWAKGTASK 157
Query: 151 IRPFM---MPLMKLACTALE 167
RP P ++L T LE
Sbjct: 158 SRPLSQGDCPPLELKNTVLE 177
>pdb|4F1I|A Chain A, Crystal Structure Of Semet Tdp2 From Caenorhabditis
Elegans
Length = 362
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 19/33 (57%)
Query: 168 RVPLTRPKIIEHLMKKFNQDLVFCRAPADNDLT 200
R LTR K + H++K N D++F + D DL
Sbjct: 133 RSLLTRXKAVAHIVKNVNPDILFLQEVVDRDLA 165
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 0.136 0.403
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,096,036
Number of Sequences: 62578
Number of extensions: 291075
Number of successful extensions: 612
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 603
Number of HSP's gapped (non-prelim): 9
length of query: 332
length of database: 14,973,337
effective HSP length: 99
effective length of query: 233
effective length of database: 8,778,115
effective search space: 2045300795
effective search space used: 2045300795
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: 52 (24.6 bits)