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= 041381
(307 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1R9C|A Chain A, Crystal Structure Of Fosfomycin Resistance Protein Fosx
From Mesorhizobium Loti
pdb|1R9C|B Chain B, Crystal Structure Of Fosfomycin Resistance Protein Fosx
From Mesorhizobium Loti
Length = 139
Score = 32.3 bits (72), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 27/44 (61%), Gaps = 1/44 (2%)
Query: 47 GKKVSKK-LQLVATLIDDGDFAVVAEKVPQPAVDKRPLQPTIIG 89
G+K++++ +A IDD DF AE+V + +D RP +P + G
Sbjct: 59 GEKLAERSYNHIAFKIDDADFDRYAERVGKLGLDMRPPRPRVEG 102
>pdb|4DB3|A Chain A, 1.95 Angstrom Resolution Crystal Structure Of
N-Acetyl-D-Glucosamine Kinase From Vibrio Vulnificus
Length = 327
Score = 32.3 bits (72), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 27/47 (57%), Gaps = 3/47 (6%)
Query: 68 VVAEKVPQPAVDKRPLQPTIIGLESTFDKVWRCLVEGQFGIIGLYGM 114
V E+VP P D L TI GL + +D+ + C EG+ G +GL GM
Sbjct: 48 VATERVPTPTDDYPLLLETIAGLVAKYDQEFAC--EGKIG-LGLPGM 91
>pdb|2ZKR|HH Chain h, Structure Of A Mammalian Ribosomal 60s Subunit Within An
80s Complex Obtained By Docking Homology Models Of The
Rna And Proteins Into An 8.7 A Cryo-Em Map
Length = 214
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/59 (23%), Positives = 32/59 (54%), Gaps = 1/59 (1%)
Query: 233 MSSKKRPEERSYAIQMLRRSAYEFPGMEKEVFRLLKFSYDSLSSDVLRSCLLYCSLFPE 291
MS + + + + + I+ LRR+ ++FPG +K + K+ + ++D + + L P+
Sbjct: 136 MSIRTKLQNKEHVIEALRRAKFKFPGRQK-IHISKKWGFTKFNADEFENMVAEKRLIPD 193
>pdb|2PA2|A Chain A, Crystal Structure Of Human Ribosomal Protein L10 Core
Domain
pdb|2PA2|B Chain B, Crystal Structure Of Human Ribosomal Protein L10 Core
Domain
Length = 151
Score = 28.9 bits (63), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 10/29 (34%), Positives = 20/29 (68%)
Query: 233 MSSKKRPEERSYAIQMLRRSAYEFPGMEK 261
MS + + + + + I+ LRR+ ++FPG +K
Sbjct: 105 MSIRTKLQNKEHVIEALRRAKFKFPGRQK 133
>pdb|4G3H|A Chain A, Crystal Structure Of Helicobacter Pylori Arginase
pdb|4G3H|B Chain B, Crystal Structure Of Helicobacter Pylori Arginase
pdb|4G3H|C Chain C, Crystal Structure Of Helicobacter Pylori Arginase
pdb|4G3H|D Chain D, Crystal Structure Of Helicobacter Pylori Arginase
Length = 330
Score = 28.5 bits (62), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 28/66 (42%)
Query: 195 KKVGQETLESHPDIPELAQTVAKECSGLPLALITTSRAMSSKKRPEERSYAIQMLRRSAY 254
KK+G L++H DI + +K G+PL ++ + E A Q L
Sbjct: 108 KKIGILYLDAHADIHTAYDSDSKHIHGMPLGMVLNRVRSGFNRMSESEEKAWQKLCSLGL 167
Query: 255 EFPGME 260
E G+E
Sbjct: 168 EKGGLE 173
>pdb|3IZA|A Chain A, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|B Chain B, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|C Chain C, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|D Chain D, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|E Chain E, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|F Chain F, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|G Chain G, Structure Of An Apoptosome-Procaspase-9 Card Complex
Length = 1263
Score = 28.5 bits (62), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 207 DIPELAQTVAKECSGLPLALITTSRAMSSKKRPEERSYAIQMLRRSAYE 255
D+PE A ++ KEC G PL + + + P Y ++ L+ ++
Sbjct: 311 DLPEQAHSIIKECKGSPLVVSLIGALL--RDFPNRWEYYLKQLQNKQFK 357
>pdb|1WST|A Chain A, Crystal Structure Of Multiple Substrate Aminotransferase
(Msat) From Thermococcus Profundus
Length = 417
Score = 28.5 bits (62), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 26/53 (49%), Gaps = 10/53 (18%)
Query: 155 RNASKIVFTTRLVDVCGLMEAQKTFKVECFADQDAWELFLKKVGQETLESHPD 207
R K+V T+ ++ + G + A +TF VE +KK+ E LE H D
Sbjct: 32 RELLKLVETSDVISLAGGLPAPETFPVET----------IKKIAVEVLEEHAD 74
>pdb|1Z6T|A Chain A, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|B Chain B, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|C Chain C, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|D Chain D, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
Length = 591
Score = 28.1 bits (61), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 10/20 (50%), Positives = 14/20 (70%)
Query: 207 DIPELAQTVAKECSGLPLAL 226
D+PE A ++ KEC G PL +
Sbjct: 305 DLPEQAHSIIKECKGSPLVV 324
>pdb|2IYO|A Chain A, Structural Characterization Of A Bacterial 6pdh Reveals
Aspects Of Specificity, Mechanism And Mode Of Inhibition
Length = 472
Score = 27.7 bits (60), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 30/51 (58%), Gaps = 5/51 (9%)
Query: 221 GLPLALITTS---RAMSSKKRPEERSYAIQMLRRSAYEFPGMEKEVFRLLK 268
G+PL LIT S R +S+ K +ER A ++L A +F G +KEV ++
Sbjct: 276 GVPLPLITESVFARYISTYK--DERVKASKVLSGPALDFSGDKKEVIEKIR 324
>pdb|2IYP|A Chain A, Product Rup
pdb|2IYP|B Chain B, Product Rup
pdb|2IYP|C Chain C, Product Rup
Length = 473
Score = 27.7 bits (60), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 30/51 (58%), Gaps = 5/51 (9%)
Query: 221 GLPLALITTS---RAMSSKKRPEERSYAIQMLRRSAYEFPGMEKEVFRLLK 268
G+PL LIT S R +S+ K +ER A ++L A +F G +KEV ++
Sbjct: 277 GVPLPLITESVFARYISTYK--DERVKASKVLSGPALDFSGDKKEVIEKIR 325
>pdb|2IZ0|A Chain A, Pex Inhibitor-Home Data
pdb|2IZ0|B Chain B, Pex Inhibitor-Home Data
pdb|2IZ0|C Chain C, Pex Inhibitor-Home Data
pdb|2IZ1|A Chain A, 6pdh Complexed With Pex Inhibitor Synchrotron Data
pdb|2IZ1|B Chain B, 6pdh Complexed With Pex Inhibitor Synchrotron Data
pdb|2IZ1|C Chain C, 6pdh Complexed With Pex Inhibitor Synchrotron Data
Length = 474
Score = 27.7 bits (60), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 30/51 (58%), Gaps = 5/51 (9%)
Query: 221 GLPLALITTS---RAMSSKKRPEERSYAIQMLRRSAYEFPGMEKEVFRLLK 268
G+PL LIT S R +S+ K +ER A ++L A +F G +KEV ++
Sbjct: 278 GVPLPLITESVFARYISTYK--DERVKASKVLSGPALDFSGDKKEVIEKIR 326
>pdb|2BE4|A Chain A, X-ray Structure An Ef-hand Protein From Danio Rerio
Dr.36843
pdb|2Q4U|A Chain A, Ensemble Refinement Of The Crystal Structure Of An Ef-Hand
Protein From Danio Rerio Dr.36843
Length = 272
Score = 27.7 bits (60), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 30/112 (26%), Positives = 51/112 (45%), Gaps = 5/112 (4%)
Query: 196 KVGQETLESHPDIPELAQTVAKECSGLPLALITTSRAMSSKKRPEERSYA-IQMLRRSAY 254
K+ + + D+ +LA+ +A + + L L + + +KR E+ +A + R A
Sbjct: 155 KIFDKNKDGRLDLNDLARILALQENFL-LQFKXDASSQVERKRDFEKIFAHYDVSRTGAL 213
Query: 255 EFP---GMEKEVFRLLKFSYDSLSSDVLRSCLLYCSLFPEDYQISKTELIEC 303
E P G K+ L++ S D R CLL +D +I K+EL C
Sbjct: 214 EGPEVDGFVKDXXELVRPSISGGDLDKFRECLLTHCDXNKDGKIQKSELALC 265
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 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,596,671
Number of Sequences: 62578
Number of extensions: 326718
Number of successful extensions: 709
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 702
Number of HSP's gapped (non-prelim): 12
length of query: 307
length of database: 14,973,337
effective HSP length: 99
effective length of query: 208
effective length of database: 8,778,115
effective search space: 1825847920
effective search space used: 1825847920
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)