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= psy17672
(319 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 = 197 bits (500), Expect = 9e-51, Method: Compositional matrix adjust.
Identities = 92/133 (69%), Positives = 103/133 (77%)
Query: 172 PETFGSVVMLYINCKVNGYPVKAFVDSGAQTTIMSAKCAERCNIMRLIDTRWAGVAKGVG 231
P G V MLYINCKVNG+P+KAFVDSGAQ TIMS CAERCNIMRL+D RWAGVAKGVG
Sbjct: 16 PRGSGQVTMLYINCKVNGHPLKAFVDSGAQMTIMSQACAERCNIMRLVDRRWAGVAKGVG 75
Query: 232 VQQIIGRIHMVQVAIEKDFLTTSLSILEEQPXXXXXXXXXXRRHECCIDLRKNVLRIGTT 291
Q+IIGR+H+ Q+ IE DFL S SILE+QP RRH+C IDL+KNVL IGTT
Sbjct: 76 TQRIIGRVHLAQIQIEGDFLQCSFSILEDQPMDMLLGLDMLRRHQCSIDLKKNVLVIGTT 135
Query: 292 GTETKFLPERELP 304
GT+T FLPE ELP
Sbjct: 136 GTQTYFLPEGELP 148
>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 = 141 bits (355), Expect = 6e-34, Method: Compositional matrix adjust.
Identities = 69/150 (46%), Positives = 97/150 (64%), Gaps = 3/150 (2%)
Query: 155 IRQKNVEANMEAAMEYNPETFGSVVMLYINCKVNGYPVKAFVDSGAQTTIMSAKCAERCN 214
++Q+ ++ + A+EY PE F V MLYIN ++N YPVKAFVD+GAQTTIMS + A++
Sbjct: 1 MKQQAIDEQLRNAIEYTPEMFTQVPMLYINIEINNYPVKAFVDTGAQTTIMSTRLAKKTG 60
Query: 215 IMRLIDTRWAGVAKGVGVQQIIGRIHMVQVAIEKDFLTTSLSILEEQPXXXXXXXXXXRR 274
+ R+ID R+ G A+GVG +IIGRIH QV IE ++ S ++L+ +R
Sbjct: 61 LSRMIDKRFIGEARGVGTGKIIGRIHQAQVKIETQYIPCSFTVLDTD-IDVLIGLDMLKR 119
Query: 275 HECCIDLRKNVLRIGTTGTETKFLPERELP 304
H C+DL++NVLRI ET FL E E+P
Sbjct: 120 HLACVDLKENVLRIAE--VETSFLSEAEIP 147
>pdb|1V5O|A Chain A, Solution Structure Of The Ubiquitin-Like Domain From
Mouse Hypothetical 1700011n24rik Protein
Length = 102
Score = 34.7 bits (78), Expect = 0.067, Method: Composition-based stats.
Identities = 17/65 (26%), Positives = 35/65 (53%), Gaps = 8/65 (12%)
Query: 2 DVEQFRLICQDECGIDATDMILLNNGKHLLEDGSCLKQAGVRDGDIILVAM--------P 53
++ FR++C+ E G+ A + ++ + L +D L G++DGD++++ P
Sbjct: 33 ELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHCSLGSYGLKDGDMVVLLQKDNVGLRTP 92
Query: 54 GRGPT 58
GR P+
Sbjct: 93 GRTPS 97
>pdb|6FIV|A Chain A, Structural Studies Of Hiv And Fiv Proteases Complexed With
An Efficient Inhibitor Of Fiv Pr
Length = 113
Score = 31.6 bits (70), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 17/22 (77%)
Query: 187 VNGYPVKAFVDSGAQTTIMSAK 208
VNGYP+K +D+GA TI++ +
Sbjct: 17 VNGYPIKFLLDTGADITILNRR 38
>pdb|5FIV|A Chain A, Structural Studies Of Hiv And Fiv Proteases Complexed With
An Efficient Inhibitor Of Fiv Pr
Length = 113
Score = 31.6 bits (70), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 17/22 (77%)
Query: 187 VNGYPVKAFVDSGAQTTIMSAK 208
VNGYP+K +D+GA TI++ +
Sbjct: 17 VNGYPIKFLLDTGADITILNRR 38
>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 = 31.6 bits (70), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 17/22 (77%)
Query: 187 VNGYPVKAFVDSGAQTTIMSAK 208
VNGYP+K +D+GA TI++ +
Sbjct: 17 VNGYPIKFLLDTGADITILNRR 38
>pdb|2HAH|A Chain A, The Structure Of Fiv 12s Protease In Complex With Tl-3
Length = 116
Score = 31.2 bits (69), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 17/22 (77%)
Query: 187 VNGYPVKAFVDSGAQTTIMSAK 208
VNGYP+K +D+GA T+++ +
Sbjct: 20 VNGYPIKFLLDTGADITVLNRR 41
>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 = 30.8 bits (68), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 17/22 (77%)
Query: 187 VNGYPVKAFVDSGAQTTIMSAK 208
VNGYP+K +D+GA T+++ +
Sbjct: 20 VNGYPIKFLLDTGADITVLNRR 41
>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 = 29.6 bits (65), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 17/22 (77%)
Query: 187 VNGYPVKAFVDSGAQTTIMSAK 208
VNGYP+K +++GA TI++ +
Sbjct: 20 VNGYPIKFLLNTGADITILNRR 41
>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 = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 17/22 (77%)
Query: 187 VNGYPVKAFVDSGAQTTIMSAK 208
VNGYP+K +++GA TI++ +
Sbjct: 20 VNGYPIKFLLNTGADITILNRR 41
>pdb|1MHS|A Chain A, Model Of Neurospora Crassa Proton Atpase
pdb|1MHS|B Chain B, Model Of Neurospora Crassa Proton Atpase
Length = 920
Score = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 23/43 (53%), Gaps = 2/43 (4%)
Query: 112 GKDAFTKVFKEQL--VEREKRQKQKIKLMNAHPFDTHAQRLIA 152
G DA K F + L R K K K++ HPFD +++++A
Sbjct: 418 GIDAIDKAFLKSLKYYPRAKSVLSKYKVLQFHPFDPVSKKVVA 460
>pdb|2IJG|X Chain X, Crystal Structure Of Cryptochrome 3 From Arabidopsis
Thaliana
pdb|2VTB|A Chain A, Structure Of Cryptochrome 3 - Dna Complex
pdb|2VTB|C Chain C, Structure Of Cryptochrome 3 - Dna Complex
pdb|2VTB|D Chain D, Structure Of Cryptochrome 3 - Dna Complex
pdb|2VTB|E Chain E, Structure Of Cryptochrome 3 - Dna Complex
pdb|2VTB|F Chain F, Structure Of Cryptochrome 3 - Dna Complex
Length = 526
Score = 28.9 bits (63), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 19/33 (57%)
Query: 276 ECCIDLRKNVLRIGTTGTETKFLPERELPSCAR 308
EC +DLRKN+++ G PE LPS A+
Sbjct: 101 ECLVDLRKNLMKRGLNLLIRSGKPEEILPSLAK 133
>pdb|2J4D|A Chain A, Cryptochrome 3 From Arabidopsis Thaliana
pdb|2J4D|B Chain B, Cryptochrome 3 From Arabidopsis Thaliana
Length = 525
Score = 28.9 bits (63), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 19/33 (57%)
Query: 276 ECCIDLRKNVLRIGTTGTETKFLPERELPSCAR 308
EC +DLRKN+++ G PE LPS A+
Sbjct: 100 ECLVDLRKNLMKRGLNLLIRSGKPEEILPSLAK 132
>pdb|2VTB|B Chain B, Structure Of Cryptochrome 3 - Dna Complex
Length = 525
Score = 28.9 bits (63), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 19/33 (57%)
Query: 276 ECCIDLRKNVLRIGTTGTETKFLPERELPSCAR 308
EC +DLRKN+++ G PE LPS A+
Sbjct: 101 ECLVDLRKNLMKRGLNLLIRSGKPEEILPSLAK 133
>pdb|1YRZ|A Chain A, Crystal Structure Of Xylan Beta-1,4-Xylosidase From
Bacillus Halodurans C-125
pdb|1YRZ|B Chain B, Crystal Structure Of Xylan Beta-1,4-Xylosidase From
Bacillus Halodurans C-125
Length = 528
Score = 28.9 bits (63), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 22/38 (57%), Gaps = 2/38 (5%)
Query: 146 HAQRLIAEEIRQKNVEANMEAAMEYNPETFGSVVMLYI 183
H+Q L+A RQ++ +E +EY PE+F + L I
Sbjct: 369 HSQSLVAR--RQQSFHCEVETKLEYQPESFQHMAGLVI 404
>pdb|3L4D|A Chain A, Crystal Structure Of Sterol 14-Alpha Demethylase (Cyp51)
From Leishmania Infantum In Complex With Fluconazole
pdb|3L4D|B Chain B, Crystal Structure Of Sterol 14-Alpha Demethylase (Cyp51)
From Leishmania Infantum In Complex With Fluconazole
pdb|3L4D|C Chain C, Crystal Structure Of Sterol 14-Alpha Demethylase (Cyp51)
From Leishmania Infantum In Complex With Fluconazole
pdb|3L4D|D Chain D, Crystal Structure Of Sterol 14-Alpha Demethylase (Cyp51)
From Leishmania Infantum In Complex With Fluconazole
Length = 453
Score = 28.5 bits (62), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 36/82 (43%), Gaps = 5/82 (6%)
Query: 240 HMVQVAIEKDFLTTSLS---ILEEQPXXXXXXXXXXRRHECCIDLRKNVLRIGTTGTETK 296
H+ ++ E D L+ ++EE P RR + L + VL+ G
Sbjct: 287 HLAKLHQEIDEFPAQLNYDNVMEEMPFAEQCARESIRRDPPLVMLMRKVLKPVQVGKYV- 345
Query: 297 FLPERELPSCARLTSASDEEEY 318
+PE ++ +C+ L S DEE +
Sbjct: 346 -VPEGDIIACSPLLSHQDEEAF 366
>pdb|1VI0|A Chain A, Crystal Structure Of A Transcriptional Regulator
pdb|1VI0|B Chain B, Crystal Structure Of A Transcriptional Regulator
Length = 206
Score = 27.7 bits (60), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 18/34 (52%)
Query: 16 IDATDMILLNNGKHLLEDGSCLKQAGVRDGDIIL 49
IDA ++ NG H + KQAGV DG I L
Sbjct: 14 IDAAVEVIAENGYHQSQVSKIAKQAGVADGTIYL 47
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 0.134 0.390
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,128,114
Number of Sequences: 62578
Number of extensions: 287471
Number of successful extensions: 644
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 629
Number of HSP's gapped (non-prelim): 17
length of query: 319
length of database: 14,973,337
effective HSP length: 99
effective length of query: 220
effective length of database: 8,778,115
effective search space: 1931185300
effective search space used: 1931185300
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)