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= 028340
(210 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4DMB|A Chain A, X-Ray Structure Of Human Hepatitus C Virus
Ns5a-Transactivated Protein 2 At The Resolution 1.9a,
Northeast Structural Genomics Consortium (Nesg) Target
Hr6723
pdb|4DMB|B Chain B, X-Ray Structure Of Human Hepatitus C Virus
Ns5a-Transactivated Protein 2 At The Resolution 1.9a,
Northeast Structural Genomics Consortium (Nesg) Target
Hr6723
Length = 204
Score = 99.0 bits (245), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 64/130 (49%), Positives = 88/130 (67%), Gaps = 2/130 (1%)
Query: 80 VIDFLSLCHRLKTTKRAGWVKRNVNNPESIADHMYRMGLMGLIMADIPGIDRDKCIKMAI 139
++ FL L +LK R GWV RNV PES++DH YR + ++ D +++D+C+++A+
Sbjct: 17 LLQFLRLVGQLKRVPRTGWVYRNVQRPESVSDHXYRXAVXAXVIKD-DRLNKDRCVRLAL 75
Query: 140 VHDIAEAIVGDITPSDGIPKEEKSQREREAITYMCKLLGQGARAKEIDELWMEYEENSTA 199
VHD AE IVGDI P+D IPKEEK +RE EA + +LL + R KE+ ELW EYE S+A
Sbjct: 76 VHDXAECIVGDIAPADNIPKEEKHRREEEAXKQITQLLPEDLR-KELYELWEEYETQSSA 134
Query: 200 EAKIVKDFDK 209
EAK VK D+
Sbjct: 135 EAKFVKQLDQ 144
>pdb|2CQZ|A Chain A, Crystal Structure Of Ph0347 Protein From Pyrococcus
Horikoshii Ot3
pdb|2CQZ|B Chain B, Crystal Structure Of Ph0347 Protein From Pyrococcus
Horikoshii Ot3
pdb|2CQZ|C Chain C, Crystal Structure Of Ph0347 Protein From Pyrococcus
Horikoshii Ot3
pdb|2CQZ|D Chain D, Crystal Structure Of Ph0347 Protein From Pyrococcus
Horikoshii Ot3
pdb|2CQZ|E Chain E, Crystal Structure Of Ph0347 Protein From Pyrococcus
Horikoshii Ot3
pdb|2CQZ|F Chain F, Crystal Structure Of Ph0347 Protein From Pyrococcus
Horikoshii Ot3
Length = 177
Score = 79.3 bits (194), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 50/136 (36%), Positives = 77/136 (56%), Gaps = 15/136 (11%)
Query: 80 VIDFLSLCHRLKTTKRAGWVKRNVNNPESIADHMYRMGLMGLIMADI-----PGIDRDKC 134
+I+ + L LK R GW+ + V PESIADH + + + L++AD+ ID +K
Sbjct: 4 MIEKILLVQTLKRLPRMGWLIKGVQEPESIADHSFGVAFITLVLADVLEKRGKRIDVEKA 63
Query: 135 IKMAIVHDIAEAIVGDITPSDGIPKEEKSQREREAITYMCKLLGQGARAKEIDELWMEYE 194
+KMAIVHD+AEAI+ DI S +E + + EA+ + E EL+ EY+
Sbjct: 64 LKMAIVHDLAEAIITDIPLS---AQEFVDKDKAEALVF-------KKVFPEFYELYREYQ 113
Query: 195 ENSTAEAKIVKDFDKV 210
E S+ EA++V+ DK+
Sbjct: 114 ECSSPEAQLVRIADKL 129
>pdb|1XX7|A Chain A, Conserved Hypothetical Protein From Pyrococcus Furiosus
Pfu- 403030-001
pdb|1XX7|B Chain B, Conserved Hypothetical Protein From Pyrococcus Furiosus
Pfu- 403030-001
pdb|1XX7|C Chain C, Conserved Hypothetical Protein From Pyrococcus Furiosus
Pfu- 403030-001
pdb|1XX7|D Chain D, Conserved Hypothetical Protein From Pyrococcus Furiosus
Pfu- 403030-001
pdb|1XX7|E Chain E, Conserved Hypothetical Protein From Pyrococcus Furiosus
Pfu- 403030-001
pdb|1XX7|F Chain F, Conserved Hypothetical Protein From Pyrococcus Furiosus
Pfu- 403030-001
Length = 184
Score = 73.9 bits (180), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 47/135 (34%), Positives = 73/135 (54%), Gaps = 15/135 (11%)
Query: 81 IDFLSLCHRLKTTKRAGWVKRNVNNPESIADHMYRMGLMGLIMADI-----PGIDRDKCI 135
ID + L +LK R GW+ + V NPES+ADH YR+ + L++A+ ID +K +
Sbjct: 10 IDLILLAGKLKRIPRMGWLIKGVPNPESVADHSYRVAFITLLLAEELKKKGVEIDVEKAL 69
Query: 136 KMAIVHDIAEAIVGDITPSDGIPKEEKSQREREAITYMCKLLGQGARAKEIDELWMEYEE 195
K+AI+HD+ EAI+ D+ P K + E +A+ + E EL+ EY +
Sbjct: 70 KIAIIHDLGEAIITDL-PLSAQKYLNKEEAEAKALKDVL---------PEYTELFEEYSK 119
Query: 196 NSTAEAKIVKDFDKV 210
T E ++VK DK+
Sbjct: 120 ALTLEGQLVKIADKL 134
>pdb|3KH1|A Chain A, Crystal Structure Of Predicted Metal-Dependent
Phosphohydrolase (Zp_00055740.2) From Magnetospirillum
Magnetotacticum Ms-1 At 1.37 A Resolution
pdb|3KH1|B Chain B, Crystal Structure Of Predicted Metal-Dependent
Phosphohydrolase (Zp_00055740.2) From Magnetospirillum
Magnetotacticum Ms-1 At 1.37 A Resolution
Length = 200
Score = 50.8 bits (120), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 35/130 (26%), Positives = 61/130 (46%), Gaps = 4/130 (3%)
Query: 83 FLSLCHRLKTTKRAGWVKRNVNNPESIADHMYRMGLMGLIMADIP--GIDRDKCIKMAIV 140
F+ +LKT R + + + E+ A+H + + ++A+ + + + ++
Sbjct: 16 FVVEIDKLKTILRQTLLT-DSSRRENDAEHSWHIATXAFLLAEYADEAVQIGRVARXLLI 74
Query: 141 HDIAEAIVGDITPSDGIPKEEKSQREREAITYMCKLLGQGARAKEIDELWMEYEENSTAE 200
HDI E GD D E+K +RER+A + LL +A E LW EYE TA+
Sbjct: 75 HDIVEIDAGDTFIHDEAGNEDKEERERKAAARLFGLLPPD-QAAEYSALWQEYEARETAD 133
Query: 201 AKIVKDFDKV 210
A+ D++
Sbjct: 134 ARFADALDRL 143
>pdb|1YOY|A Chain A, Predicted Coding Region Af1432 From Archaeoglobus Fulgidus
Length = 175
Score = 50.1 bits (118), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 41/75 (54%), Gaps = 3/75 (4%)
Query: 80 VIDFLSLCHRLKTTKRAGWVKRNVNNPESIADHMYRMGLMGLIMADIPGIDRDKCIK--- 136
V+ F+ LK T R+GW+K + PES+A+H +R ++ I+A G +K K
Sbjct: 12 VVKFIHEVGSLKLTPRSGWLKLGIRLPESVAEHSFRAAIIAFILALKSGESVEKACKAAT 71
Query: 137 MAIVHDIAEAIVGDI 151
A+ HD+ EA D+
Sbjct: 72 AALFHDLHEARTMDL 86
>pdb|1YNB|A Chain A, Crystal Structure Of Genomics Apc5600
pdb|1YNB|B Chain B, Crystal Structure Of Genomics Apc5600
pdb|1YNB|C Chain C, Crystal Structure Of Genomics Apc5600
Length = 173
Score = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 41/75 (54%), Gaps = 3/75 (4%)
Query: 80 VIDFLSLCHRLKTTKRAGWVKRNVNNPESIADHMYRMGLMGLIMADIPGIDRDKCIK--- 136
V+ F+ LK T R+GW+K + PES+A+H +R ++ I+A G +K K
Sbjct: 10 VVKFIHEVGSLKLTPRSGWLKLGIRLPESVAEHNFRAAIIAFILALKSGESVEKACKAAT 69
Query: 137 MAIVHDIAEAIVGDI 151
A+ HD+ EA D+
Sbjct: 70 AALFHDLHEARTMDL 84
>pdb|2GZ4|A Chain A, 1.5 A Crystal Structure Of A Protein Of Unknown Function
Atu1052 From Agrobacterium Tumefaciens
pdb|2GZ4|B Chain B, 1.5 A Crystal Structure Of A Protein Of Unknown Function
Atu1052 From Agrobacterium Tumefaciens
pdb|2GZ4|C Chain C, 1.5 A Crystal Structure Of A Protein Of Unknown Function
Atu1052 From Agrobacterium Tumefaciens
pdb|2GZ4|D Chain D, 1.5 A Crystal Structure Of A Protein Of Unknown Function
Atu1052 From Agrobacterium Tumefaciens
Length = 207
Score = 28.5 bits (62), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 29/52 (55%), Gaps = 6/52 (11%)
Query: 105 NPESIADHMYRMGLMGLIMADI-----PGIDRDKCIKMAIVHDIAEAIVGDI 151
N ++ DH + + LI+ I PG D+ ++MA++HD E ++GD+
Sbjct: 45 NGQTRGDHAFTVAQHCLIVETIFCRMCPGATPDE-MQMALLHDAPEYVIGDM 95
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 0.135 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,256,983
Number of Sequences: 62578
Number of extensions: 177404
Number of successful extensions: 367
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 354
Number of HSP's gapped (non-prelim): 7
length of query: 210
length of database: 14,973,337
effective HSP length: 95
effective length of query: 115
effective length of database: 9,028,427
effective search space: 1038269105
effective search space used: 1038269105
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: 49 (23.5 bits)