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= psy18092
(183 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2YYB|A Chain A, Crystal Structure Of Ttha1606 From Thermus Thermophilus
Hb8
pdb|2YYB|B Chain B, Crystal Structure Of Ttha1606 From Thermus Thermophilus
Hb8
Length = 242
Score = 37.4 bits (85), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 33/68 (48%), Gaps = 2/68 (2%)
Query: 107 TSTHVLIKDSDLDEIMINSIAVCAGSGGELLRGKKADLYITGEMSHHDVLDATHRGTTVL 166
T L+ LD + ++ + +GSG LL ADL++TGE H + RG V+
Sbjct: 149 TGMQPLVHQGGLDHV--ETVILVSGSGTGLLPKVDADLFVTGEPKHSVFHETFERGLNVI 206
Query: 167 LLEHSDSE 174
H D+E
Sbjct: 207 YAGHYDTE 214
>pdb|2FYW|A Chain A, Crystal Structure Of A Conserved Protein Of Unknown
Function From Streptococcus Pneumoniae
pdb|2FYW|B Chain B, Crystal Structure Of A Conserved Protein Of Unknown
Function From Streptococcus Pneumoniae
pdb|2FYW|C Chain C, Crystal Structure Of A Conserved Protein Of Unknown
Function From Streptococcus Pneumoniae
Length = 267
Score = 35.0 bits (79), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 25/47 (53%), Gaps = 3/47 (6%)
Query: 123 INSIAVCAGSGGELLR---GKKADLYITGEMSHHDVLDATHRGTTVL 166
I+ +A+C GSG + K AD+YITG++ +H D G L
Sbjct: 177 ISRVAICGGSGQSFYKDALAKGADVYITGDIYYHTAQDXLSDGLLAL 223
>pdb|2NYD|A Chain A, Crystal Structure Of Staphylococcus Aureus Hypothetical
Protein Sa1388
pdb|2NYD|B Chain B, Crystal Structure Of Staphylococcus Aureus Hypothetical
Protein Sa1388
Length = 370
Score = 33.5 bits (75), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 20/29 (68%)
Query: 142 ADLYITGEMSHHDVLDATHRGTTVLLLEH 170
AD+++TG++ HHD LDA G ++ + H
Sbjct: 302 ADVFVTGDIKHHDALDAKIHGVNLIDINH 330
>pdb|3LNL|A Chain A, Crystal Structure Of Staphylococcus Aureus Protein Sa1388
pdb|3LNL|B Chain B, Crystal Structure Of Staphylococcus Aureus Protein Sa1388
Length = 370
Score = 33.5 bits (75), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 20/29 (68%)
Query: 142 ADLYITGEMSHHDVLDATHRGTTVLLLEH 170
AD+++TG++ HHD LDA G ++ + H
Sbjct: 302 ADVFVTGDIKHHDALDAKIHGVNLIDINH 330
>pdb|2GX8|A Chain A, The Crystal Stucture Of Bacillus Cereus Protein Related To
Nif3
pdb|2GX8|B Chain B, The Crystal Stucture Of Bacillus Cereus Protein Related To
Nif3
pdb|2GX8|C Chain C, The Crystal Stucture Of Bacillus Cereus Protein Related To
Nif3
Length = 397
Score = 30.4 bits (67), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 25/47 (53%), Gaps = 3/47 (6%)
Query: 123 INSIAVCAGSGGELLRGKK---ADLYITGEMSHHDVLDATHRGTTVL 166
+ +AV G G + + K AD+Y+TG+M +H DA G ++
Sbjct: 307 VRKVAVLGGDGNKYINQAKFKGADVYVTGDMYYHVAHDAMMLGLNIV 353
>pdb|1NSL|A Chain A, Crystal Structure Of Probable Acetyltransferase
pdb|1NSL|B Chain B, Crystal Structure Of Probable Acetyltransferase
pdb|1NSL|C Chain C, Crystal Structure Of Probable Acetyltransferase
pdb|1NSL|D Chain D, Crystal Structure Of Probable Acetyltransferase
pdb|1NSL|E Chain E, Crystal Structure Of Probable Acetyltransferase
pdb|1NSL|F Chain F, Crystal Structure Of Probable Acetyltransferase
Length = 184
Score = 30.0 bits (66), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 40/88 (45%), Gaps = 19/88 (21%)
Query: 82 TINKKKLDSYFDGKHF-GVSIHTVANTSTHVLIKDSDLDEIMINSIAVCAGSGGE----- 135
+N+K Y+ K F G I T A LI + +E+ +N +A+CA G E
Sbjct: 90 QVNRKAEIGYWIAKEFEGKGIITAA---CRKLITYA-FEELELNRVAICAAVGNEKSRAV 145
Query: 136 ------LLRGKKAD-LYITGEMSHHDVL 156
L GK D LY+ G HHD++
Sbjct: 146 PERIGFLEEGKARDGLYVNG--XHHDLV 171
>pdb|1SP4|B Chain B, Crystal Structure Of Ns-134 In Complex With Bovine
Cathepsin B: A Two Headed Epoxysuccinyl Inhibitor
Extends Along The Whole Active Site Cleft
Length = 205
Score = 28.5 bits (62), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 33/89 (37%), Gaps = 2/89 (2%)
Query: 28 FPPGTDNVRSRNGWLSPIL--SSFSLRFRDDKTARDTVSRVVTRLFAMEKIPGSNPTINK 85
FP G N ++ G +S L S R V+ P N T
Sbjct: 27 FPSGAWNFWTKKGLVSGGLYNSHVGCRPYSIPPCEHHVNGSRPPCTGEGDTPKCNKTCEP 86
Query: 86 KKLDSYFDGKHFGVSIHTVANTSTHVLIK 114
SY + KHFG S ++VAN ++ +
Sbjct: 87 GYSPSYKEDKHFGCSSYSVANNEKEIMAE 115
>pdb|3JRO|A Chain A, Nup84-Nup145c-Sec13 Edge Element Of The Npc Lattice
Length = 753
Score = 28.1 bits (61), Expect = 2.7, Method: Composition-based stats.
Identities = 12/36 (33%), Positives = 21/36 (58%)
Query: 55 DDKTARDTVSRVVTRLFAMEKIPGSNPTINKKKLDS 90
DDK A DT+ R+V R + + ++ +N+ K+ S
Sbjct: 698 DDKAAEDTIKRLVXREITLLRASTNDHILNRLKIPS 733
>pdb|4ICH|A Chain A, Crystal Structure Of A Putative Tetr Family
Transcriptional Regulator From Saccharomonospora Viridis
Dsm 43017
pdb|4ICH|B Chain B, Crystal Structure Of A Putative Tetr Family
Transcriptional Regulator From Saccharomonospora Viridis
Dsm 43017
Length = 311
Score = 27.3 bits (59), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 28/63 (44%), Gaps = 2/63 (3%)
Query: 82 TINKKKLDSYFDG--KHFGVSIHTVANTSTHVLIKDSDLDEIMINSIAVCAGSGGELLRG 139
T+N K D Y D + + T+ + +D D DE+ A+ G G ++L G
Sbjct: 226 TLNPKIRDLYNDAYDRWYQTIAXTIRTGQKQGVFRDQDADELATRLSALIDGLGIQVLTG 285
Query: 140 KKA 142
K+
Sbjct: 286 KRG 288
>pdb|1NMO|A Chain A, Structural Genomics, Protein Ybgi, Unknown Function
pdb|1NMO|B Chain B, Structural Genomics, Protein Ybgi, Unknown Function
pdb|1NMO|C Chain C, Structural Genomics, Protein Ybgi, Unknown Function
pdb|1NMO|D Chain D, Structural Genomics, Protein Ybgi, Unknown Function
pdb|1NMO|E Chain E, Structural Genomics, Protein Ybgi, Unknown Function
pdb|1NMO|F Chain F, Structural Genomics, Protein Ybgi, Unknown Function
Length = 247
Score = 27.3 bits (59), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 16/64 (25%), Positives = 27/64 (42%), Gaps = 3/64 (4%)
Query: 122 MINSIAVCAGSGGELLRGKK---ADLYITGEMSHHDVLDATHRGTTVLLLEHSDSERPFL 178
++ +A C G G + D +ITGE+S + A +G H +ER +
Sbjct: 164 VVQRVAWCTGGGQSFIDSAARFGVDAFITGEVSEQTIHSAREQGLHFYAAGHHATERGGI 223
Query: 179 QFFS 182
+ S
Sbjct: 224 RALS 227
>pdb|1NMP|A Chain A, Structural Genomics, Ybgi Protein, Unknown Function
pdb|1NMP|B Chain B, Structural Genomics, Ybgi Protein, Unknown Function
pdb|1NMP|C Chain C, Structural Genomics, Ybgi Protein, Unknown Function
pdb|1NMP|D Chain D, Structural Genomics, Ybgi Protein, Unknown Function
pdb|1NMP|E Chain E, Structural Genomics, Ybgi Protein, Unknown Function
pdb|1NMP|F Chain F, Structural Genomics, Ybgi Protein, Unknown Function
Length = 247
Score = 26.9 bits (58), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 16/64 (25%), Positives = 27/64 (42%), Gaps = 3/64 (4%)
Query: 122 MINSIAVCAGSGGELLRGKK---ADLYITGEMSHHDVLDATHRGTTVLLLEHSDSERPFL 178
++ +A C G G + D +ITGE+S + A +G H +ER +
Sbjct: 164 VVQRVAWCTGGGQSFIDSAARFGVDAFITGEVSEQTIHSAREQGLHFYAAGHHATERGGI 223
Query: 179 QFFS 182
+ S
Sbjct: 224 RALS 227
>pdb|2YAY|A Chain A, The Crystal Structure Of Leishmania Major Dutpase In
Complex With Substrate Analogue Dupnpp
pdb|2YAZ|A Chain A, The Crystal Structure Of Leishmania Major Dutpase In
Complex Dump
pdb|2YAZ|B Chain B, The Crystal Structure Of Leishmania Major Dutpase In
Complex Dump
pdb|2YAZ|D Chain D, The Crystal Structure Of Leishmania Major Dutpase In
Complex Dump
pdb|2YAZ|E Chain E, The Crystal Structure Of Leishmania Major Dutpase In
Complex Dump
pdb|2YB0|A Chain A, The Crystal Structure Of Leishmania Major Dutpase In
Complex Deoxyuridine
pdb|2YB0|B Chain B, The Crystal Structure Of Leishmania Major Dutpase In
Complex Deoxyuridine
pdb|2YB0|D Chain D, The Crystal Structure Of Leishmania Major Dutpase In
Complex Deoxyuridine
pdb|2YB0|E Chain E, The Crystal Structure Of Leishmania Major Dutpase In
Complex Deoxyuridine
Length = 271
Score = 26.9 bits (58), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 20/37 (54%)
Query: 86 KKLDSYFDGKHFGVSIHTVANTSTHVLIKDSDLDEIM 122
++L Y DG + V+ N+ H IKD LDE++
Sbjct: 189 RQLSGYKDGSYVKVNNGVEDNSLLHNCIKDVSLDEVL 225
>pdb|2CJE|A Chain A, The Crystal Structure Of A Complex Of Leishmania Major
Dutpase With Substrate Analogue Dupnhp
Length = 268
Score = 26.9 bits (58), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 20/37 (54%)
Query: 86 KKLDSYFDGKHFGVSIHTVANTSTHVLIKDSDLDEIM 122
++L Y DG + V+ N+ H IKD LDE++
Sbjct: 186 RQLSGYKDGSYVKVNNGVEDNSLLHNCIKDVSLDEVL 222
>pdb|3BG0|B Chain B, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG0|C Chain C, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG0|F Chain F, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG0|G Chain G, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG1|B Chain B, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG1|C Chain C, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG1|F Chain F, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG1|G Chain G, Architecture Of A Coat For The Nuclear Pore Membrane
Length = 442
Score = 26.6 bits (57), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 21/36 (58%)
Query: 55 DDKTARDTVSRVVTRLFAMEKIPGSNPTINKKKLDS 90
DDK A DT+ R+V R + + ++ +N+ K+ S
Sbjct: 389 DDKAAEDTIKRLVMREITLLRASTNDHILNRLKIPS 424
>pdb|3IKO|B Chain B, Crystal Structure Of The Heterotrimeric
Sec13-Nup145c-Nup84 Nucleoporin Complex
pdb|3IKO|E Chain E, Crystal Structure Of The Heterotrimeric
Sec13-Nup145c-Nup84 Nucleoporin Complex
pdb|3IKO|H Chain H, Crystal Structure Of The Heterotrimeric
Sec13-Nup145c-Nup84 Nucleoporin Complex
Length = 442
Score = 26.6 bits (57), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 21/36 (58%)
Query: 55 DDKTARDTVSRVVTRLFAMEKIPGSNPTINKKKLDS 90
DDK A DT+ R+V R + + ++ +N+ K+ S
Sbjct: 389 DDKAAEDTIKRLVMREITLLRASTNDHILNRLKIPS 424
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
0.322 0.137 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,505,948
Number of Sequences: 62578
Number of extensions: 212187
Number of successful extensions: 483
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 473
Number of HSP's gapped (non-prelim): 16
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 (21.9 bits)
S2: 48 (23.1 bits)