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= 035585
(183 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1W5S|A Chain A, Structure Of The Aeropyrum Pernix Orc2 Protein (Adp Form)
pdb|1W5S|B Chain B, Structure Of The Aeropyrum Pernix Orc2 Protein (Adp Form)
pdb|1W5T|A Chain A, Structure Of The Aeropyrum Pernix Orc2 Protein (Adpnp-Adp
Complexes)
pdb|1W5T|B Chain B, Structure Of The Aeropyrum Pernix Orc2 Protein (Adpnp-Adp
Complexes)
pdb|1W5T|C Chain C, Structure Of The Aeropyrum Pernix Orc2 Protein (Adpnp-Adp
Complexes)
Length = 412
Score = 31.6 bits (70), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 44/150 (29%), Positives = 59/150 (39%), Gaps = 21/150 (14%)
Query: 41 ALTDVNVNIVGVYGMGGIGKTTL----VKEFARQASEEKLFDQVVFSEVSQTPDIKKIHG 96
L+DVN+ I G G GIGKTTL VK + A++E L + + P++ I
Sbjct: 47 GLSDVNM-IYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLYTILS 105
Query: 97 EIAEKLG--LEFXXXXXXXXXXXLYERLKKEK-MILVILDNIWKYL--------DLETV- 144
I + G ++ L + L E +LVILD L DL T+
Sbjct: 106 LIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLL 165
Query: 145 ----GIPFGDDHRGCKLLLTARDCNVLLNM 170
IP D LL A D L M
Sbjct: 166 RVHEEIPSRDGVNRIGFLLVASDVRALSYM 195
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 29.6 bits (65), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 2/47 (4%)
Query: 28 FKSRLSTLKSIQDALTDVN--VNIVGVYGMGGIGKTTLVKEFARQAS 72
F +R + +IQ L +N V +YGM G GK+ L E R S
Sbjct: 133 FVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHS 179
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 29.6 bits (65), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 2/47 (4%)
Query: 28 FKSRLSTLKSIQDALTDVN--VNIVGVYGMGGIGKTTLVKEFARQAS 72
F +R + +IQ L +N V +YGM G GK+ L E R S
Sbjct: 126 FVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHS 172
>pdb|2ERX|A Chain A, Crystal Structure Of Diras2 In Complex With Gdp And
Inorganic Phosphate
pdb|2ERX|B Chain B, Crystal Structure Of Diras2 In Complex With Gdp And
Inorganic Phosphate
Length = 172
Score = 28.5 bits (62), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 17/31 (54%)
Query: 50 VGVYGMGGIGKTTLVKEFARQASEEKLFDQV 80
V V+G GG+GK++LV F + E V
Sbjct: 6 VAVFGAGGVGKSSLVLRFVKGTFRESYIPTV 36
>pdb|1YQT|A Chain A, Rnase-L Inhibitor
Length = 538
Score = 28.1 bits (61), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 11/20 (55%), Positives = 14/20 (70%)
Query: 49 IVGVYGMGGIGKTTLVKEFA 68
++G+ G GIGKTT VK A
Sbjct: 314 VIGIVGPNGIGKTTFVKXLA 333
>pdb|1SGW|A Chain A, Putative Abc Transporter (Atp-Binding Protein) From
Pyrococcus Furiosus Pfu-867808-001
Length = 214
Score = 27.7 bits (60), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 29/51 (56%), Gaps = 6/51 (11%)
Query: 48 NIVGVYGMGGIGKTTLVKEFARQASEEKLFDQVVFSEVSQTPDIKKIHGEI 98
N+V +G GIGKTTL+K + + L +++++ V I K+ G+I
Sbjct: 36 NVVNFHGPNGIGKTTLLKTISTYL--KPLKGEIIYNGVP----ITKVKGKI 80
>pdb|3BK7|A Chain A, Structure Of The Complete Abce1RNAASE-L Inhibitor Protein
From Pyrococcus Abysii
Length = 607
Score = 27.7 bits (60), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 11/20 (55%), Positives = 14/20 (70%)
Query: 49 IVGVYGMGGIGKTTLVKEFA 68
++G+ G GIGKTT VK A
Sbjct: 384 VIGIVGPNGIGKTTFVKMLA 403
Score = 26.2 bits (56), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 12/22 (54%), Positives = 14/22 (63%)
Query: 49 IVGVYGMGGIGKTTLVKEFARQ 70
+VG+ G G GKTT VK A Q
Sbjct: 119 VVGIVGPNGTGKTTAVKILAGQ 140
>pdb|3J15|B Chain B, Model Of Ribosome-Bound Archaeal Pelota And Abce1
Length = 593
Score = 27.7 bits (60), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 11/20 (55%), Positives = 14/20 (70%)
Query: 49 IVGVYGMGGIGKTTLVKEFA 68
++G+ G GIGKTT VK A
Sbjct: 370 VIGIVGPNGIGKTTFVKMLA 389
Score = 26.2 bits (56), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 12/22 (54%), Positives = 14/22 (63%)
Query: 49 IVGVYGMGGIGKTTLVKEFARQ 70
+VG+ G G GKTT VK A Q
Sbjct: 105 VVGIVGPNGTGKTTAVKILAGQ 126
>pdb|3OZX|A Chain A, Crystal Structure Of Abce1 Of Sulfolubus Solfataricus
(-Fes Domain)
pdb|3OZX|B Chain B, Crystal Structure Of Abce1 Of Sulfolubus Solfataricus
(-Fes Domain)
Length = 538
Score = 27.7 bits (60), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 13/26 (50%), Positives = 17/26 (65%)
Query: 43 TDVNVNIVGVYGMGGIGKTTLVKEFA 68
T N I+GV G G+GKTT++K A
Sbjct: 21 TPKNNTILGVLGKNGVGKTTVLKILA 46
>pdb|2J28|9 Chain 9, Model Of E. Coli Srp Bound To 70s Rncs
Length = 430
Score = 27.3 bits (59), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 30/114 (26%), Positives = 58/114 (50%), Gaps = 12/114 (10%)
Query: 2 RRFDDRIFYRTIAEEVWLKSNKGYEAFK-SRLSTLKSIQDALTDVNVN-----IVGVYGM 55
R F +R+ + + EV G E K R + ++ + +N+ +V + G+
Sbjct: 48 REFINRVKEKAVGHEVNKSLTPGQEFVKIVRNELVAAMGEENQTLNLAAQPPAVVLMAGL 107
Query: 56 GGIGKTTLV---KEFARQASEEKLFDQVVFSEVSQTPDIKKIHGEIAEKLGLEF 106
G GKTT V +F R+ ++K+ VV ++V + IK++ +AE++G++F
Sbjct: 108 QGAGKTTSVGKLGKFLREKHKKKVL--VVSADVYRPAAIKQLE-TLAEQVGVDF 158
>pdb|2XXA|A Chain A, The Crystal Structure Of The Signal Recognition Particle
(Srp) In Complex With Its Receptor(Sr)
pdb|2XXA|C Chain C, The Crystal Structure Of The Signal Recognition Particle
(Srp) In Complex With Its Receptor(Sr)
Length = 433
Score = 26.9 bits (58), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 30/114 (26%), Positives = 58/114 (50%), Gaps = 12/114 (10%)
Query: 2 RRFDDRIFYRTIAEEVWLKSNKGYEAFK-SRLSTLKSIQDALTDVNVN-----IVGVYGM 55
R F +R+ + + EV G E K R + ++ + +N+ +V + G+
Sbjct: 49 REFINRVKEKAVGHEVNKSLTPGQEFVKIVRNELVAAMGEENQTLNLAAQPPAVVLMAGL 108
Query: 56 GGIGKTTLV---KEFARQASEEKLFDQVVFSEVSQTPDIKKIHGEIAEKLGLEF 106
G GKTT V +F R+ ++K+ VV ++V + IK++ +AE++G++F
Sbjct: 109 QGAGKTTSVGKLGKFLREKHKKKVL--VVSADVYRPAAIKQLE-TLAEQVGVDF 159
>pdb|1OSN|A Chain A, Crystal Structure Of Varicella Zoster Virus Thymidine
Kinase In Complex With Bvdu-Mp And Adp
pdb|1OSN|B Chain B, Crystal Structure Of Varicella Zoster Virus Thymidine
Kinase In Complex With Bvdu-Mp And Adp
pdb|1OSN|C Chain C, Crystal Structure Of Varicella Zoster Virus Thymidine
Kinase In Complex With Bvdu-Mp And Adp
pdb|1OSN|D Chain D, Crystal Structure Of Varicella Zoster Virus Thymidine
Kinase In Complex With Bvdu-Mp And Adp
Length = 341
Score = 26.6 bits (57), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 18/27 (66%), Gaps = 2/27 (7%)
Query: 43 TDVNVNIVGVY--GMGGIGKTTLVKEF 67
TDV + ++ +Y G GIGKTT +EF
Sbjct: 6 TDVKMGVLRIYLDGAYGIGKTTAAEEF 32
>pdb|3M6A|A Chain A, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|B Chain B, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|C Chain C, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|D Chain D, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|E Chain E, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|F Chain F, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
Length = 543
Score = 26.6 bits (57), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 24/48 (50%)
Query: 22 NKGYEAFKSRLSTLKSIQDALTDVNVNIVGVYGMGGIGKTTLVKEFAR 69
+ G E K R+ ++Q + I+ + G G+GKT+L K A+
Sbjct: 83 HHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAK 130
>pdb|1SXJ|B Chain B, Crystal Structure Of The Eukaryotic Clamp Loader
(Replication Factor C, Rfc) Bound To The Dna Sliding
Clamp (Proliferating Cell Nuclear Antigen, Pcna)
Length = 323
Score = 26.2 bits (56), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 20/37 (54%)
Query: 34 TLKSIQDALTDVNVNIVGVYGMGGIGKTTLVKEFARQ 70
T+ +Q D N+ + + GM GIGKTT V A +
Sbjct: 29 TIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHE 65
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 0.138 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,771,238
Number of Sequences: 62578
Number of extensions: 166066
Number of successful extensions: 688
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 672
Number of HSP's gapped (non-prelim): 32
length of query: 183
length of database: 14,973,337
effective HSP length: 93
effective length of query: 90
effective length of database: 9,153,583
effective search space: 823822470
effective search space used: 823822470
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: 48 (23.1 bits)