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= 032822
(133 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3OAE|A Chain A, Crystal Structure Of Hpv16 L1 Pentamer Bound To Heparin
Oligosaccharides
pdb|3OAE|B Chain B, Crystal Structure Of Hpv16 L1 Pentamer Bound To Heparin
Oligosaccharides
pdb|3OAE|C Chain C, Crystal Structure Of Hpv16 L1 Pentamer Bound To Heparin
Oligosaccharides
pdb|3OAE|D Chain D, Crystal Structure Of Hpv16 L1 Pentamer Bound To Heparin
Oligosaccharides
pdb|3OAE|E Chain E, Crystal Structure Of Hpv16 L1 Pentamer Bound To Heparin
Oligosaccharides
Length = 428
Score = 28.9 bits (63), Expect = 0.79, Method: Composition-based stats.
Identities = 14/39 (35%), Positives = 21/39 (53%)
Query: 12 DDKEKKKAMKTVSGLAGVDSISMDMKEKKLTVIGDIDPV 50
DD E A +G+ + ISMD K+ +L +IG P+
Sbjct: 110 DDTENASAYAANAGVDNRECISMDYKQTQLCLIGCKPPI 148
>pdb|2R5H|A Chain A, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 16
pdb|2R5H|B Chain B, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 16
pdb|2R5H|C Chain C, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 16
pdb|2R5H|D Chain D, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 16
pdb|2R5H|E Chain E, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 16
pdb|2R5H|F Chain F, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 16
pdb|2R5H|G Chain G, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 16
pdb|2R5H|H Chain H, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 16
pdb|2R5H|I Chain I, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 16
pdb|2R5H|J Chain J, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 16
pdb|2R5H|K Chain K, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 16
pdb|2R5H|L Chain L, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 16
pdb|2R5H|M Chain M, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 16
pdb|2R5H|N Chain N, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 16
pdb|2R5H|O Chain O, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 16
Length = 424
Score = 28.9 bits (63), Expect = 0.79, Method: Composition-based stats.
Identities = 14/39 (35%), Positives = 21/39 (53%)
Query: 12 DDKEKKKAMKTVSGLAGVDSISMDMKEKKLTVIGDIDPV 50
DD E A +G+ + ISMD K+ +L +IG P+
Sbjct: 108 DDTENASAYAANAGVDNRECISMDYKQTQLCLIGCKPPI 146
>pdb|1DZL|A Chain A, L1 Protein Of Human Papillomavirus 16
Length = 505
Score = 28.9 bits (63), Expect = 0.79, Method: Composition-based stats.
Identities = 14/39 (35%), Positives = 21/39 (53%)
Query: 12 DDKEKKKAMKTVSGLAGVDSISMDMKEKKLTVIGDIDPV 50
DD E A +G+ + ISMD K+ +L +IG P+
Sbjct: 127 DDTENASAYAANAGVDNRECISMDYKQTQLCLIGCKPPI 165
>pdb|3AI4|A Chain A, Crystal Structure Of Yeast Enhanced Green Fluorescent
Protein - Mouse Polymerase Iota Ubiquitin Binding Motif
Fusion Protein
Length = 283
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 25/45 (55%), Gaps = 1/45 (2%)
Query: 22 TVSGLAGVDSISMDMKEKKLTVIGDIDPVSIVSKLRKLCHTEILS 66
T +G+ G +S +D E+KL DIDP + +L + E+++
Sbjct: 226 TAAGITGSESRELDSAEEKLPFPPDIDP-QVFYELPEEVQKELMA 269
>pdb|2R5J|A Chain A, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|B Chain B, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|C Chain C, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|D Chain D, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|E Chain E, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|F Chain F, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|G Chain G, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|H Chain H, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|I Chain I, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|J Chain J, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|K Chain K, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|L Chain L, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|M Chain M, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|N Chain N, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|O Chain O, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
Length = 423
Score = 26.2 bits (56), Expect = 5.5, Method: Composition-based stats.
Identities = 14/39 (35%), Positives = 19/39 (48%)
Query: 12 DDKEKKKAMKTVSGLAGVDSISMDMKEKKLTVIGDIDPV 50
DD E SG + ISMD K+ +L +IG P+
Sbjct: 108 DDTENSNKYVGNSGTDNRECISMDYKQTQLCLIGCRPPI 146
>pdb|2ZKR|FF Chain f, Structure Of A Mammalian Ribosomal 60s Subunit Within An
80s Complex Obtained By Docking Homology Models Of The
Rna And Proteins Into An 8.7 A Cryo-Em Map
Length = 266
Score = 26.2 bits (56), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 25/38 (65%), Gaps = 3/38 (7%)
Query: 27 AGVDSIS--MDMKEKKLTVIG-DIDPVSIVSKLRKLCH 61
AGV++++ ++ K+ +L VI D+DP+ +V L LC
Sbjct: 138 AGVNTVTTLVENKKAQLVVIAHDVDPIELVVFLPALCR 175
>pdb|4A17|F Chain F, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 5s Rrna, 5.8s
Rrna And Proteins Of Molecule 2.
pdb|4A1A|F Chain F, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 5s Rrna, 5.8s
Rrna And Proteins Of Molecule 3.
pdb|4A1C|F Chain F, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 5s Rrna, 5.8s
Rrna And Proteins Of Molecule 4.
pdb|4A1E|F Chain F, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 5s Rrna, 5.8s
Rrna And Proteins Of Molecule 1
Length = 255
Score = 26.2 bits (56), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 28/48 (58%), Gaps = 2/48 (4%)
Query: 15 EKKKAMKTVSGLAGVDSISMDMKEKKLTVIG-DIDPVSIVSKLRKLCH 61
E KK + GL + ++ ++ K+ KL VI D+DP+ +V L +LC
Sbjct: 118 ETKKPIVLKYGLNHITTL-IENKQAKLVVIAHDVDPIELVIFLPQLCR 164
>pdb|3TSM|A Chain A, Crystal Structure Of Indole-3-Glycerol Phosphate Synthase
From Brucella Melitensis
pdb|3TSM|B Chain B, Crystal Structure Of Indole-3-Glycerol Phosphate Synthase
From Brucella Melitensis
Length = 272
Score = 25.4 bits (54), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 21/34 (61%)
Query: 10 VHDDKEKKKAMKTVSGLAGVDSISMDMKEKKLTV 43
VHD+ E ++A+K S L GV++ ++ E L V
Sbjct: 176 VHDEAEMERALKLSSRLLGVNNRNLRSFEVNLAV 209
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
0.317 0.131 0.372
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,789,887
Number of Sequences: 62578
Number of extensions: 67962
Number of successful extensions: 185
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 170
Number of HSP's gapped (non-prelim): 18
length of query: 133
length of database: 14,973,337
effective HSP length: 88
effective length of query: 45
effective length of database: 9,466,473
effective search space: 425991285
effective search space used: 425991285
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 46 (22.3 bits)