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= 018582
(353 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2CGJ|A Chain A, Crystal Structure Of L-Rhamnulose Kinase From Escherichia
Coli In Complex With L-Fructose And Adp.
pdb|2CGK|A Chain A, Crystal Structure Of L-Rhamnulose Kinase From Escherichia
Coli In An Open Uncomplexed Conformation.
pdb|2CGK|B Chain B, Crystal Structure Of L-Rhamnulose Kinase From Escherichia
Coli In An Open Uncomplexed Conformation.
pdb|2UYT|A Chain A, Structure Of L-Rhamnulose Kinase In Complex With Adp And
Beta-L-Rhamnulose
Length = 489
Score = 32.3 bits (72), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 24/42 (57%), Gaps = 3/42 (7%)
Query: 18 GFSSMPFNSLMTLYAKTGHPEKIPAIIQEMKASSIMPDSYTY 59
G +PFN+L L A T E+ P +I + + +MPD ++Y
Sbjct: 128 GIQFLPFNTLYQLRALT---EQQPELIPHIAHALLMPDYFSY 166
>pdb|2EAE|A Chain A, Crystal Structure Of 1,2-A-L-Fucosidase From
Bifidobacterium Bifidum In Complexes With Products
Length = 898
Score = 31.2 bits (69), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 32/145 (22%), Positives = 54/145 (37%), Gaps = 13/145 (8%)
Query: 115 LKELENRNA-HRDLSAYQFLITLYGQTGNLSEVYRIWRSLRLAFPNTANISYLNMIQVLV 173
L EL+ +NA + +L Y + G GN S V + F +TA Y+N +L
Sbjct: 743 LVELQLKNAMYANLFDYHAPFQIAGNFGNTSGVDEMLLQSNSTFTDTAGKKYVNYTNILP 802
Query: 174 NLKDLPGAEKCFKEWESGCATYDIRVTNVMIGAYAKEGRLENAEELKERARRRGADPNAK 233
L D W G + + N +G K G+ + ++ A
Sbjct: 803 ALPDA---------WAGGSVSGLVARGNFTVGTTWKNGKATEVRLTSNKGKQAAVKITAG 853
Query: 234 TWEIFSDYYLRNGDMKLAVDCLEKA 258
+ +Y ++NGD + + A
Sbjct: 854 GAQ---NYEVKNGDTAVNAKVVTNA 875
>pdb|3PE3|A Chain A, Structure Of Human O-Glcnac Transferase And Its Complex
With A Peptide Substrate
pdb|3PE3|B Chain B, Structure Of Human O-Glcnac Transferase And Its Complex
With A Peptide Substrate
pdb|3PE3|C Chain C, Structure Of Human O-Glcnac Transferase And Its Complex
With A Peptide Substrate
pdb|3PE3|D Chain D, Structure Of Human O-Glcnac Transferase And Its Complex
With A Peptide Substrate
pdb|3PE4|A Chain A, Structure Of Human O-Glcnac Transferase And Its Complex
With A Peptide Substrate
pdb|3PE4|C Chain C, Structure Of Human O-Glcnac Transferase And Its Complex
With A Peptide Substrate
pdb|3TAX|A Chain A, A Neutral Diphosphate Mimic Crosslinks The Active Site Of
Human O- Glcnac Transferase
pdb|3TAX|C Chain C, A Neutral Diphosphate Mimic Crosslinks The Active Site Of
Human O- Glcnac Transferase
pdb|4AY5|A Chain A, Human O-Glcnac Transferase (Ogt) In Complex With Udp And
Glycopeptide
pdb|4AY5|B Chain B, Human O-Glcnac Transferase (Ogt) In Complex With Udp And
Glycopeptide
pdb|4AY5|C Chain C, Human O-Glcnac Transferase (Ogt) In Complex With Udp And
Glycopeptide
pdb|4AY5|D Chain D, Human O-Glcnac Transferase (Ogt) In Complex With Udp And
Glycopeptide
pdb|4AY6|A Chain A, Human O-Glcnac Transferase (Ogt) In Complex With
Udp-5sglcnac And Substrate Peptide
pdb|4AY6|B Chain B, Human O-Glcnac Transferase (Ogt) In Complex With
Udp-5sglcnac And Substrate Peptide
pdb|4AY6|C Chain C, Human O-Glcnac Transferase (Ogt) In Complex With
Udp-5sglcnac And Substrate Peptide
pdb|4AY6|D Chain D, Human O-Glcnac Transferase (Ogt) In Complex With
Udp-5sglcnac And Substrate Peptide
pdb|4GYW|A Chain A, Crystal Structure Of Human O-Glcnac Transferase In Complex
With Udp And A Glycopeptide
pdb|4GYW|C Chain C, Crystal Structure Of Human O-Glcnac Transferase In Complex
With Udp And A Glycopeptide
pdb|4GYY|A Chain A, Crystal Structure Of Human O-Glcnac Transferase With
Udp-5sglcnac And A Peptide Substrate
pdb|4GYY|C Chain C, Crystal Structure Of Human O-Glcnac Transferase With
Udp-5sglcnac And A Peptide Substrate
pdb|4GZ3|A Chain A, Crystal Structure Of Human O-Glcnac Transferase With Udp
And A Thioglycopeptide
pdb|4GZ3|C Chain C, Crystal Structure Of Human O-Glcnac Transferase With Udp
And A Thioglycopeptide
pdb|4GZ5|A Chain A, Crystal Structure Of Human O-Glcnac Transferase With
Udp-Glcnac
pdb|4GZ5|B Chain B, Crystal Structure Of Human O-Glcnac Transferase With
Udp-Glcnac
pdb|4GZ5|C Chain C, Crystal Structure Of Human O-Glcnac Transferase With
Udp-Glcnac
pdb|4GZ5|D Chain D, Crystal Structure Of Human O-Glcnac Transferase With
Udp-Glcnac
pdb|4GZ6|A Chain A, Crystal Structure Of Human O-Glcnac Transferase With
Udp-5sglcnac
pdb|4GZ6|B Chain B, Crystal Structure Of Human O-Glcnac Transferase With
Udp-5sglcnac
pdb|4GZ6|C Chain C, Crystal Structure Of Human O-Glcnac Transferase With
Udp-5sglcnac
pdb|4GZ6|D Chain D, Crystal Structure Of Human O-Glcnac Transferase With
Udp-5sglcnac
Length = 723
Score = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 28/105 (26%), Positives = 47/105 (44%), Gaps = 12/105 (11%)
Query: 86 GRVAADWTTFSNLASIYVEAGLFEKAERALKEL-----ENRNAHRDLSAYQFLITLYGQT 140
G + +NLA+I E G E+A R ++ E AH +L+ ++ Q
Sbjct: 3 GSCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLA------SVLQQQ 56
Query: 141 GNLSEVYRIWRSLRLAFPNTANISYLNMIQVLVNLKDLPGAEKCF 185
G L E ++ P A+ +Y NM L ++D+ GA +C+
Sbjct: 57 GKLQEALMHYKEAIRISPTFAD-AYSNMGNTLKEMQDVQGALQCY 100
>pdb|2EAB|A Chain A, Crystal Structure Of 1,2-A-L-Fucosidase From
Bifidobacterium Bifidum (Apo Form)
pdb|2EAB|B Chain B, Crystal Structure Of 1,2-A-L-Fucosidase From
Bifidobacterium Bifidum (Apo Form)
pdb|2EAC|A Chain A, Crystal Structure Of 1,2-A-L-Fucosidase From
Bifidobacterium Bifidum In Complex With
Deoxyfuconojirimycin
pdb|2EAC|B Chain B, Crystal Structure Of 1,2-A-L-Fucosidase From
Bifidobacterium Bifidum In Complex With
Deoxyfuconojirimycin
Length = 899
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 32/145 (22%), Positives = 54/145 (37%), Gaps = 13/145 (8%)
Query: 115 LKELENRNA-HRDLSAYQFLITLYGQTGNLSEVYRIWRSLRLAFPNTANISYLNMIQVLV 173
L EL+ +NA + +L Y + G GN S V + F +TA Y+N +L
Sbjct: 744 LVELQLKNAMYANLFDYHAPFQIDGNFGNTSGVDEMLLQSNSTFTDTAGKKYVNYTNILP 803
Query: 174 NLKDLPGAEKCFKEWESGCATYDIRVTNVMIGAYAKEGRLENAEELKERARRRGADPNAK 233
L D W G + + N +G K G+ + ++ A
Sbjct: 804 ALPDA---------WAGGSVSGLVARGNFTVGTTWKNGKATEVRLTSNKGKQAAVKITAG 854
Query: 234 TWEIFSDYYLRNGDMKLAVDCLEKA 258
+ +Y ++NGD + + A
Sbjct: 855 GAQ---NYEVKNGDTAVNAKVVTNA 876
>pdb|2EAD|A Chain A, Crystal Structure Of 1,2-A-L-Fucosidase From
Bifidobacterium Bifidum In Complex With Substrate
pdb|2EAD|B Chain B, Crystal Structure Of 1,2-A-L-Fucosidase From
Bifidobacterium Bifidum In Complex With Substrate
Length = 899
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 32/145 (22%), Positives = 54/145 (37%), Gaps = 13/145 (8%)
Query: 115 LKELENRNA-HRDLSAYQFLITLYGQTGNLSEVYRIWRSLRLAFPNTANISYLNMIQVLV 173
L EL+ +NA + +L Y + G GN S V + F +TA Y+N +L
Sbjct: 744 LVELQLKNAMYANLFDYHAPFQIDGNFGNTSGVDEMLLQSNSTFTDTAGKKYVNYTNILP 803
Query: 174 NLKDLPGAEKCFKEWESGCATYDIRVTNVMIGAYAKEGRLENAEELKERARRRGADPNAK 233
L D W G + + N +G K G+ + ++ A
Sbjct: 804 ALPD---------AWAGGSVSGLVARGNFTVGTTWKNGKATEVRLTSNKGKQAAVKITAG 854
Query: 234 TWEIFSDYYLRNGDMKLAVDCLEKA 258
+ +Y ++NGD + + A
Sbjct: 855 GAQ---NYEVKNGDTAVNAKVVTNA 876
>pdb|3KD7|A Chain A, Designed Tpr Module (Ctpr390) In Complex With Its
Peptide-Ligand (Hsp90 Peptide)
pdb|3KD7|B Chain B, Designed Tpr Module (Ctpr390) In Complex With Its
Peptide-Ligand (Hsp90 Peptide)
pdb|3KD7|C Chain C, Designed Tpr Module (Ctpr390) In Complex With Its
Peptide-Ligand (Hsp90 Peptide)
pdb|3KD7|D Chain D, Designed Tpr Module (Ctpr390) In Complex With Its
Peptide-Ligand (Hsp90 Peptide)
pdb|3KD7|E Chain E, Designed Tpr Module (Ctpr390) In Complex With Its
Peptide-Ligand (Hsp90 Peptide)
Length = 125
Score = 29.3 bits (64), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 32/66 (48%), Gaps = 3/66 (4%)
Query: 206 AYAKEGRLENAEELKERARRRGADPN-AKTWEIFSDYYLRNGDMKLAVDCLEKAIDTGRG 264
AY K+G + A E ++A DPN A W + Y + GD + A++ +KA++
Sbjct: 18 AYYKQGDYQKAIEYYQKALE--LDPNNASAWYNLGNAYYKQGDYQKAIEYYQKALELDPN 75
Query: 265 DGGKWV 270
+ W
Sbjct: 76 NAKAWY 81
Score = 28.9 bits (63), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 31/56 (55%), Gaps = 3/56 (5%)
Query: 206 AYAKEGRLENAEELKERARRRGADPN-AKTWEIFSDYYLRNGDMKLAVDCLEKAID 260
AY K+G + A E ++A DPN AK W + Y + GD + A++ +KA++
Sbjct: 52 AYYKQGDYQKAIEYYQKALE--LDPNNAKAWYRRGNAYYKQGDYQKAIEDYQKALE 105
>pdb|1NA3|A Chain A, Design Of Stable Alpha-Helical Arrays From An Idealized
Tpr Motif
pdb|1NA3|B Chain B, Design Of Stable Alpha-Helical Arrays From An Idealized
Tpr Motif
Length = 91
Score = 28.9 bits (63), Expect = 4.3, Method: Composition-based stats.
Identities = 18/56 (32%), Positives = 30/56 (53%), Gaps = 3/56 (5%)
Query: 206 AYAKEGRLENAEELKERARRRGADPN-AKTWEIFSDYYLRNGDMKLAVDCLEKAID 260
AY K+G + A E ++A DPN A+ W + Y + GD A++ +KA++
Sbjct: 18 AYYKQGDYDEAIEYYQKALE--LDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALE 71
>pdb|3NF1|A Chain A, Crystal Structure Of The Tpr Domain Of Kinesin Light Chain
1
Length = 311
Score = 28.9 bits (63), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 22/36 (61%)
Query: 94 TFSNLASIYVEAGLFEKAERALKELENRNAHRDLSA 129
T +NLAS Y++ G F++AE KE+ R R+ +
Sbjct: 197 TKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGS 232
>pdb|1NA0|A Chain A, Design Of Stable Alpha-Helical Arrays From An Idealized
Tpr Motif
pdb|1NA0|B Chain B, Design Of Stable Alpha-Helical Arrays From An Idealized
Tpr Motif
Length = 125
Score = 28.5 bits (62), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 32/66 (48%), Gaps = 3/66 (4%)
Query: 206 AYAKEGRLENAEELKERARRRGADPN-AKTWEIFSDYYLRNGDMKLAVDCLEKAIDTGRG 264
AY K+G + A E ++A DPN A+ W + Y + GD A++ +KA++
Sbjct: 18 AYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN 75
Query: 265 DGGKWV 270
+ W
Sbjct: 76 NAEAWY 81
Score = 28.1 bits (61), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 30/56 (53%), Gaps = 3/56 (5%)
Query: 206 AYAKEGRLENAEELKERARRRGADPN-AKTWEIFSDYYLRNGDMKLAVDCLEKAID 260
AY K+G + A E ++A DPN A+ W + Y + GD A++ +KA++
Sbjct: 52 AYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALE 105
>pdb|4A8E|A Chain A, The Structure Of A Dimeric Xer Recombinase From Archaea
Length = 292
Score = 28.5 bits (62), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 36/71 (50%), Gaps = 2/71 (2%)
Query: 262 GRGDGGKWVPSSETIRTFMRHFEQEKDVDGAEGFLEILKKAVDDLGVEVFEPLIRTYA-- 319
G+G + VP SE++ + ++ + + ++ D F+E+ +K D L + L++ Y
Sbjct: 159 GKGGKDRVVPISESLLSEIKRYLESRNDDSPYLFVEMKRKRKDKLSPKTVWRLVKKYGRK 218
Query: 320 AAGRTSPVMLR 330
A +P LR
Sbjct: 219 AGVELTPHQLR 229
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
0.318 0.133 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,021,237
Number of Sequences: 62578
Number of extensions: 415369
Number of successful extensions: 1191
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 1176
Number of HSP's gapped (non-prelim): 34
length of query: 353
length of database: 14,973,337
effective HSP length: 100
effective length of query: 253
effective length of database: 8,715,537
effective search space: 2205030861
effective search space used: 2205030861
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)