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= psy15482
(302 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3S8I|A Chain A, The Retroviral-Like Protease (Rvp) Domain Of Human Ddi1
pdb|3S8I|B Chain B, The Retroviral-Like Protease (Rvp) Domain Of Human Ddi1
Length = 148
Score = 120 bits (301), Expect = 9e-28, Method: Compositional matrix adjust.
Identities = 52/71 (73%), Positives = 61/71 (85%)
Query: 207 PETFGTVVMLYINCKVNGYPVKAFIDSGAQTTIMSLACAERVNIMRLLDTRWAGIAKGVG 266
P G V MLYINCKVNG+P+KAF+DSGAQ TIMS ACAER NIMRL+D RWAG+AKGVG
Sbjct: 16 PRGSGQVTMLYINCKVNGHPLKAFVDSGAQMTIMSQACAERCNIMRLVDRRWAGVAKGVG 75
Query: 267 VQKILGRIHMA 277
Q+I+GR+H+A
Sbjct: 76 TQRIIGRVHLA 86
>pdb|2I1A|A Chain A, A Retroviral Protease-Like Domain In The Eukaryotic
Protein Ddi1
pdb|2I1A|B Chain B, A Retroviral Protease-Like Domain In The Eukaryotic
Protein Ddi1
pdb|2I1A|C Chain C, A Retroviral Protease-Like Domain In The Eukaryotic
Protein Ddi1
pdb|2I1A|D Chain D, A Retroviral Protease-Like Domain In The Eukaryotic
Protein Ddi1
Length = 148
Score = 102 bits (254), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 46/88 (52%), Positives = 63/88 (71%)
Query: 190 IKKNNIEANMEAAMEYNPETFGTVVMLYINCKVNGYPVKAFIDSGAQTTIMSLACAERVN 249
+K+ I+ + A+EY PE F V MLYIN ++N YPVKAF+D+GAQTTIMS A++
Sbjct: 1 MKQQAIDEQLRNAIEYTPEMFTQVPMLYINIEINNYPVKAFVDTGAQTTIMSTRLAKKTG 60
Query: 250 IMRLLDTRWAGIAKGVGVQKILGRIHMA 277
+ R++D R+ G A+GVG KI+GRIH A
Sbjct: 61 LSRMIDKRFIGEARGVGTGKIIGRIHQA 88
>pdb|1V5O|A Chain A, Solution Structure Of The Ubiquitin-Like Domain From
Mouse Hypothetical 1700011n24rik Protein
Length = 102
Score = 58.2 bits (139), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 26/58 (44%), Positives = 39/58 (67%)
Query: 14 FLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKTHGIQDGDLVLL 71
F L V+ D EL NF+ CE++SG PA E I + LL D+ +L ++G++DGD+V+L
Sbjct: 24 FSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHCSLGSYGLKDGDMVVL 81
>pdb|1WH3|A Chain A, Solution Structure Of C-Terminal Ubiquitin Like Domain
Of Human 2'-5'-Oligoadenylate Synthetase-Like Protain
(P59 Oasl)
Length = 87
Score = 34.7 bits (78), Expect = 0.066, Method: Composition-based stats.
Identities = 22/46 (47%), Positives = 27/46 (58%), Gaps = 2/46 (4%)
Query: 32 EVQSGYPAHEIAIEFQGVLLQDNKKTLKTHGIQDGD-LVLLKHLGS 76
E Q G P + +EFQG +LQD L +GIQD D L+L K GS
Sbjct: 38 EDQQGLPKKQQQLEFQGQVLQD-WLGLGIYGIQDSDTLILSKKKGS 82
>pdb|6FIV|A Chain A, Structural Studies Of Hiv And Fiv Proteases Complexed With
An Efficient Inhibitor Of Fiv Pr
Length = 113
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 11/20 (55%), Positives = 16/20 (80%)
Query: 222 VNGYPVKAFIDSGAQTTIMS 241
VNGYP+K +D+GA TI++
Sbjct: 17 VNGYPIKFLLDTGADITILN 36
>pdb|5FIV|A Chain A, Structural Studies Of Hiv And Fiv Proteases Complexed With
An Efficient Inhibitor Of Fiv Pr
Length = 113
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 11/20 (55%), Positives = 16/20 (80%)
Query: 222 VNGYPVKAFIDSGAQTTIMS 241
VNGYP+K +D+GA TI++
Sbjct: 17 VNGYPIKFLLDTGADITILN 36
>pdb|1FIV|A Chain A, Structure Of An Inhibitor Complex Of Proteinase From
Feline Immunodeficiency Virus
pdb|1B11|A Chain A, Structure Of Feline Immunodeficiency Virus Protease
Complexed With Tl- 3-093
pdb|4FIV|A Chain A, Fiv Protease Complexed With An Inhibitor Lp-130
Length = 113
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 11/20 (55%), Positives = 16/20 (80%)
Query: 222 VNGYPVKAFIDSGAQTTIMS 241
VNGYP+K +D+GA TI++
Sbjct: 17 VNGYPIKFLLDTGADITILN 36
>pdb|4A18|K Chain K, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 1
pdb|4A1B|K Chain K, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 3.
pdb|4A1D|K Chain K, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 4.
pdb|4A19|K Chain K, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 2.
pdb|4ADX|5 Chain 5, The Cryo-Em Structure Of The Archaeal 50s Ribosomal
Subunit In Complex With Initiation Factor 6
Length = 129
Score = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 29/98 (29%), Positives = 43/98 (43%), Gaps = 5/98 (5%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
M++ V T T + LDV +EN KA + + G P + + F G L+D +TL
Sbjct: 1 MQIFVKT-LTGKTITLDVEASDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDG-RTLSD 58
Query: 61 HGIQDGD---LVLLKHLGSYHATPAAVIPNFDFSGIVV 95
+ IQ LVL G T AA+ ++ V
Sbjct: 59 YNIQKESTLHLVLRLRGGGMEPTIAALAKKYNCEKKVC 96
>pdb|2HAH|A Chain A, The Structure Of Fiv 12s Protease In Complex With Tl-3
Length = 116
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 10/20 (50%), Positives = 16/20 (80%)
Query: 222 VNGYPVKAFIDSGAQTTIMS 241
VNGYP+K +D+GA T+++
Sbjct: 20 VNGYPIKFLLDTGADITVLN 39
>pdb|3OGP|A Chain A, Crystal Structure Of 6s-98s Fiv Protease With Darunavir
Bound
pdb|3OGP|B Chain B, Crystal Structure Of 6s-98s Fiv Protease With Darunavir
Bound
pdb|3OGQ|A Chain A, Crystal Structure Of 6s-98s Fiv Protease With Lopinavir
Bound
pdb|3OGQ|B Chain B, Crystal Structure Of 6s-98s Fiv Protease With Lopinavir
Bound
Length = 116
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 10/20 (50%), Positives = 16/20 (80%)
Query: 222 VNGYPVKAFIDSGAQTTIMS 241
VNGYP+K +D+GA T+++
Sbjct: 20 VNGYPIKFLLDTGADITVLN 39
>pdb|1WXV|A Chain A, Solution Structure Of The Ubiquitin Domain Of Bcl-2
Binding Athanogene-1
Length = 92
Score = 29.3 bits (64), Expect = 3.1, Method: Composition-based stats.
Identities = 24/86 (27%), Positives = 42/86 (48%), Gaps = 7/86 (8%)
Query: 3 VTVSTQHTNECFLLDV-----SEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKT 57
+TV+ H+NE L V S + +++ E G P + F+G L++ +
Sbjct: 8 LTVTVTHSNEKHDLHVTSQQGSSEPVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKEMETP 67
Query: 58 LKTHGIQDGDLVLLKHLGSYHATPAA 83
L GIQDG V+L +G ++ P++
Sbjct: 68 LSALGIQDGCRVML--IGKKNSGPSS 91
>pdb|2FIV|A Chain A, Crystal Structure Of Feline Immunodeficiency Virus
Protease Complexed With A Substrate
pdb|2FIV|B Chain B, Crystal Structure Of Feline Immunodeficiency Virus
Protease Complexed With A Substrate
Length = 116
Score = 28.5 bits (62), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 10/20 (50%), Positives = 16/20 (80%)
Query: 222 VNGYPVKAFIDSGAQTTIMS 241
VNGYP+K +++GA TI++
Sbjct: 20 VNGYPIKFLLNTGADITILN 39
>pdb|3FIV|A Chain A, Crystal Structure Of Feline Immunodeficiency Virus
Protease Complexed With A Substrate
pdb|3FIV|B Chain B, Crystal Structure Of Feline Immunodeficiency Virus
Protease Complexed With A Substrate
Length = 116
Score = 28.5 bits (62), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 10/20 (50%), Positives = 16/20 (80%)
Query: 222 VNGYPVKAFIDSGAQTTIMS 241
VNGYP+K +++GA TI++
Sbjct: 20 VNGYPIKFLLNTGADITILN 39
>pdb|3ZVK|A Chain A, Crystal Structure Of Vapbc2 From Rickettsia Felis Bound To
A Dna Fragment From Their Promoter
pdb|3ZVK|B Chain B, Crystal Structure Of Vapbc2 From Rickettsia Felis Bound To
A Dna Fragment From Their Promoter
pdb|3ZVK|C Chain C, Crystal Structure Of Vapbc2 From Rickettsia Felis Bound To
A Dna Fragment From Their Promoter
pdb|3ZVK|D Chain D, Crystal Structure Of Vapbc2 From Rickettsia Felis Bound To
A Dna Fragment From Their Promoter
Length = 134
Score = 27.7 bits (60), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 15/68 (22%), Positives = 34/68 (50%), Gaps = 2/68 (2%)
Query: 22 LELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKTHGIQDGDLVLLKHLGSYHATP 81
LE+ +F A C G E+ E +G+++ +N + +H I + ++ ++ + P
Sbjct: 68 LEIIDFSAKCTFYYGELRTEL--EQKGLIIGNNDLLIASHAIAENATLVTNNIKEFKRIP 125
Query: 82 AAVIPNFD 89
++ N+D
Sbjct: 126 NLILENWD 133
>pdb|4HJK|A Chain A, U7ub7 Disulfide Variant
Length = 77
Score = 27.7 bits (60), Expect = 8.3, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 16 LDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKTHGIQ 64
L+V +EN KA + + GYP + + F G L+D +TL + IQ
Sbjct: 16 LEVEPSDTIENVKAKIQDKIGYPPDQQRLIFAGKQLEDG-RTLSDYNIQ 63
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
0.319 0.136 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,492,960
Number of Sequences: 62578
Number of extensions: 268401
Number of successful extensions: 647
Number of sequences better than 100.0: 53
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 43
Number of HSP's that attempted gapping in prelim test: 632
Number of HSP's gapped (non-prelim): 58
length of query: 302
length of database: 14,973,337
effective HSP length: 98
effective length of query: 204
effective length of database: 8,840,693
effective search space: 1803501372
effective search space used: 1803501372
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: 51 (24.3 bits)