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= 003559
(811 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3OC9|A Chain A, Crystal Structure Of Putative Udp-N-Acetylglucosamine
Pyrophosphorylase From Entamoeba Histolytica
Length = 405
Score = 53.9 bits (128), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 44/159 (27%), Positives = 71/159 (44%), Gaps = 8/159 (5%)
Query: 292 IYPLGGSADRLGLVDHETGE-CLPAAMLPYCGRTLLEGLIRDLQAREFLYFKLYGKQCIT 350
I P GG RLG +H G LP + + E L+R LQ Y + K +
Sbjct: 39 ITPAGGQGSRLGF-EHPKGMFVLPFEIPKSIFQMTSERLLR-LQELASEY--SHQKNVMI 94
Query: 351 PVAIMTSSAKNNHERITSLCERLRWFGRGQSSFQLFEQPLVPAVDAEDGQWLVMRPFAPV 410
+MT+ + E I + + ++FG F Q ++P VD +G+ L + P
Sbjct: 95 HWFLMTN--EETIEEINNYFKEHQYFGLSSEQIHCFPQGMLPVVDF-NGKILYEKKDKPY 151
Query: 411 CKPGGHGAIWKLAHDKGIFKWFHDNGRKGATVRQVSNVV 449
P GHG ++K D GI ++ ++ G K + V N++
Sbjct: 152 MAPNGHGGLFKALKDNGILEFMNEKGIKYSVAHNVDNIL 190
>pdb|1JVD|A Chain A, Crystal Structure Of Human Agx2 Complexed With Udpglcnac
pdb|1JVD|B Chain B, Crystal Structure Of Human Agx2 Complexed With Udpglcnac
pdb|1JVG|A Chain A, Crystal Structure Of Human Agx2 Complexed With Udpgalnac
pdb|1JVG|B Chain B, Crystal Structure Of Human Agx2 Complexed With Udpgalnac
Length = 522
Score = 42.7 bits (99), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 57/251 (22%), Positives = 97/251 (38%), Gaps = 30/251 (11%)
Query: 268 LSQNTEYAAQAALWGIEGLPELGE-----IYPLGGSADRLGLVDHETGECLPAAM----L 318
L T Q W EGL ++ + + GG RLG+ P M L
Sbjct: 77 LGSATRDQDQLQAWESEGLFQISQNKVAVLLLAGGQGTRLGV-------AYPKGMYDVGL 129
Query: 319 PYCGRTLLEGLIRDLQAREFLYFKLYGKQCITPVAIMTSSAKNNHERITSLCERLRWFGR 378
P +TL + + + + K YG +CI P IMTS E + ++FG
Sbjct: 130 P-SRKTLFQIQAERILKLQQVAEKYYGNKCIIPWYIMTSG--RTMESTKEFFTKHKYFGL 186
Query: 379 GQSSFQLFEQPLVPAVDAEDGQWLVMRPFAPVCKPGGHGAIWKLAHDKGIFKWFHDNGRK 438
+ + F+Q ++PA+ + DG+ ++ P G+G +++ + I + G
Sbjct: 187 KKENVIFFQQGMLPAM-SFDGKIILEEKNKVSMAPDGNGGLYRALAAQNIVEDMEQRGIW 245
Query: 439 GATVRQVSNVVXXXXXXXXXXXGIGLHHGKKLGFASCKRSSGATEGINVLIEKKNLDGKW 498
V V N++ G + G G A + TE + V+ +DG +
Sbjct: 246 SIHVYCVDNIL--VKVADPRFIGFCIQKGADCG-AKVVEKTNPTEPVGVVCR---VDGVY 299
Query: 499 AYGLSCIEYTE 509
+EY+E
Sbjct: 300 ----QVVEYSE 306
>pdb|1JV1|A Chain A, Crystal Structure Of Human Agx1 Complexed With Udpglcnac
pdb|1JV1|B Chain B, Crystal Structure Of Human Agx1 Complexed With Udpglcnac
pdb|1JV3|A Chain A, Crystal Structure Of Human Agx1 Complexed With Udpgalnac
pdb|1JV3|B Chain B, Crystal Structure Of Human Agx1 Complexed With Udpgalnac
Length = 505
Score = 42.7 bits (99), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 57/251 (22%), Positives = 97/251 (38%), Gaps = 30/251 (11%)
Query: 268 LSQNTEYAAQAALWGIEGLPELGE-----IYPLGGSADRLGLVDHETGECLPAAM----L 318
L T Q W EGL ++ + + GG RLG+ P M L
Sbjct: 77 LGSATRDQDQLQAWESEGLFQISQNKVAVLLLAGGQGTRLGV-------AYPKGMYDVGL 129
Query: 319 PYCGRTLLEGLIRDLQAREFLYFKLYGKQCITPVAIMTSSAKNNHERITSLCERLRWFGR 378
P +TL + + + + K YG +CI P IMTS E + ++FG
Sbjct: 130 P-SRKTLFQIQAERILKLQQVAEKYYGNKCIIPWYIMTSG--RTMESTKEFFTKHKYFGL 186
Query: 379 GQSSFQLFEQPLVPAVDAEDGQWLVMRPFAPVCKPGGHGAIWKLAHDKGIFKWFHDNGRK 438
+ + F+Q ++PA+ + DG+ ++ P G+G +++ + I + G
Sbjct: 187 KKENVIFFQQGMLPAM-SFDGKIILEEKNKVSMAPDGNGGLYRALAAQNIVEDMEQRGIW 245
Query: 439 GATVRQVSNVVXXXXXXXXXXXGIGLHHGKKLGFASCKRSSGATEGINVLIEKKNLDGKW 498
V V N++ G + G G A + TE + V+ +DG +
Sbjct: 246 SIHVYCVDNIL--VKVADPRFIGFCIQKGADCG-AKVVEKTNPTEPVGVVCR---VDGVY 299
Query: 499 AYGLSCIEYTE 509
+EY+E
Sbjct: 300 ----QVVEYSE 306
>pdb|1PX5|A Chain A, Crystal Structure Of The 2'-Specific And Double-Stranded
Rna-Activated Interferon-Induced Antiviral Protein
2'-5'- Oligoadenylate Synthetase
pdb|1PX5|B Chain B, Crystal Structure Of The 2'-Specific And Double-Stranded
Rna-Activated Interferon-Induced Antiviral Protein
2'-5'- Oligoadenylate Synthetase
Length = 349
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 22/108 (20%), Positives = 40/108 (37%)
Query: 565 PIVYMDNFGDTHSVPGGRLECTMQNIADNFLNTYSSRCYKGVEDDLDTFMVYNERRRVTS 624
P +D F + H +P ++ D RC++G D + V
Sbjct: 7 PARDLDKFIEDHLLPNTXFRTQVKEAIDIVXRFLKERCFQGTADPVRVSKVVKGGSSGKG 66
Query: 625 SAKKKRKRADMSLHQTPDGSFLDILRNAYDILCQCHIKLPEIEGNDKY 672
+ + R AD+ + T SF D LR + + + +L + K+
Sbjct: 67 TTLRGRSDADLVVFLTKLTSFEDQLRRRGEFIQEIRRQLEACQREQKF 114
>pdb|1K25|A Chain A, Pbp2x From A Highly Penicillin-Resistant Streptococcus
Pneumoniae Clinical Isolate
pdb|1K25|B Chain B, Pbp2x From A Highly Penicillin-Resistant Streptococcus
Pneumoniae Clinical Isolate
pdb|1K25|C Chain C, Pbp2x From A Highly Penicillin-Resistant Streptococcus
Pneumoniae Clinical Isolate
pdb|1K25|D Chain D, Pbp2x From A Highly Penicillin-Resistant Streptococcus
Pneumoniae Clinical Isolate
Length = 685
Score = 31.2 bits (69), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 23/59 (38%)
Query: 304 LVDHETGECLPAAMLPYCGRTLLEGLIRDLQAREFLYFKLYGKQCITPVAIMTSSAKNN 362
LV +TGE L P EG+ D R+ LY Y V + SS NN
Sbjct: 228 LVSAKTGEILATTQRPTFNADTKEGITEDFVWRDILYQSNYEPGSAMKVMTLASSIDNN 286
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 0.137 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 23,720,332
Number of Sequences: 62578
Number of extensions: 990011
Number of successful extensions: 1855
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1851
Number of HSP's gapped (non-prelim): 5
length of query: 811
length of database: 14,973,337
effective HSP length: 107
effective length of query: 704
effective length of database: 8,277,491
effective search space: 5827353664
effective search space used: 5827353664
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: 56 (26.2 bits)