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= 037983
(205 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3M1T|A Chain A, Crystal Structure Of Putative Phosphohydrolase
(Yp_929327.1) From Shewanella Amazonensis Sb2b At 1.62 A
Resolution
Length = 275
Score = 34.7 bits (78), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 30/59 (50%), Gaps = 10/59 (16%)
Query: 126 HRRALLEEVTSMPRF----------MDDEADSAMVWKYDKSYDPIYSTEILKCSNSSRF 174
H ALL++V +PR +++E + S+DP+ S +L+ +NS+RF
Sbjct: 3 HSAALLQKVDELPRLPKAIAELLDVVNNEDSTVKAVSEKLSHDPVLSARVLRLANSARF 61
>pdb|3SX2|A Chain A, Crystal Structure Of A Putative
3-Ketoacyl-(Acyl-Carrier-Protein) Reductase From
Mycobacterium Paratuberculosis In Complex With Nad
pdb|3SX2|B Chain B, Crystal Structure Of A Putative
3-Ketoacyl-(Acyl-Carrier-Protein) Reductase From
Mycobacterium Paratuberculosis In Complex With Nad
pdb|3SX2|C Chain C, Crystal Structure Of A Putative
3-Ketoacyl-(Acyl-Carrier-Protein) Reductase From
Mycobacterium Paratuberculosis In Complex With Nad
pdb|3SX2|D Chain D, Crystal Structure Of A Putative
3-Ketoacyl-(Acyl-Carrier-Protein) Reductase From
Mycobacterium Paratuberculosis In Complex With Nad
pdb|3SX2|E Chain E, Crystal Structure Of A Putative
3-Ketoacyl-(Acyl-Carrier-Protein) Reductase From
Mycobacterium Paratuberculosis In Complex With Nad
pdb|3SX2|F Chain F, Crystal Structure Of A Putative
3-Ketoacyl-(Acyl-Carrier-Protein) Reductase From
Mycobacterium Paratuberculosis In Complex With Nad
pdb|3SX2|G Chain G, Crystal Structure Of A Putative
3-Ketoacyl-(Acyl-Carrier-Protein) Reductase From
Mycobacterium Paratuberculosis In Complex With Nad
pdb|3SX2|H Chain H, Crystal Structure Of A Putative
3-Ketoacyl-(Acyl-Carrier-Protein) Reductase From
Mycobacterium Paratuberculosis In Complex With Nad
Length = 278
Score = 32.0 bits (71), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 23/50 (46%), Gaps = 2/50 (4%)
Query: 1 MANQPRTRKRVHAIRRAPDGSAFEKCDRCE--AMVPIALVDMHECEAKVK 48
+ R + R HA+R A DG+ D C+ A VP L E A VK
Sbjct: 18 ITGAARGQGRAHAVRLAADGADIIAVDLCDQIASVPYPLATPEELAATVK 67
>pdb|3IGY|B Chain B, Crystal Structures Of Leishmania Mexicana Phosphoglycerate
Mutase At High Cobalt Concentrations
pdb|3IGZ|B Chain B, Crystal Structures Of Leishmania Mexicana Phosphoglycerate
Mutase At Low Cobalt Concentration
Length = 561
Score = 31.2 bits (69), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 27/50 (54%), Gaps = 5/50 (10%)
Query: 8 RKRVHAI---RRAPDGSAFEKCDRCEAMVPIALVDMHECEAKVKNKVKRF 54
R RVHA+ R PDGS+F D EA+ +A V + C+A + + R
Sbjct: 156 RIRVHALYDGRDVPDGSSFRFTDELEAV--LAKVRQNGCDAAIASGGGRM 203
>pdb|3KOW|A Chain A, Crystal Structure Of Ornithine 4,5 Aminomutase Backsoaked
Complex
pdb|3KOW|B Chain B, Crystal Structure Of Ornithine 4,5 Aminomutase Backsoaked
Complex
pdb|3KOW|C Chain C, Crystal Structure Of Ornithine 4,5 Aminomutase Backsoaked
Complex
pdb|3KOW|D Chain D, Crystal Structure Of Ornithine 4,5 Aminomutase Backsoaked
Complex
pdb|3KOX|A Chain A, Crystal Structure Of Ornithine 4,5 Aminomutase In Complex
With 2,4- Diaminobutyrate (Anaerobic)
pdb|3KOX|B Chain B, Crystal Structure Of Ornithine 4,5 Aminomutase In Complex
With 2,4- Diaminobutyrate (Anaerobic)
pdb|3KOX|C Chain C, Crystal Structure Of Ornithine 4,5 Aminomutase In Complex
With 2,4- Diaminobutyrate (Anaerobic)
pdb|3KOX|D Chain D, Crystal Structure Of Ornithine 4,5 Aminomutase In Complex
With 2,4- Diaminobutyrate (Anaerobic)
pdb|3KOY|A Chain A, Crystal Structure Of Ornithine 4,5 Aminomutase In Complex
With Ornithine (Aerobic)
pdb|3KOY|B Chain B, Crystal Structure Of Ornithine 4,5 Aminomutase In Complex
With Ornithine (Aerobic)
pdb|3KOY|C Chain C, Crystal Structure Of Ornithine 4,5 Aminomutase In Complex
With Ornithine (Aerobic)
pdb|3KOY|D Chain D, Crystal Structure Of Ornithine 4,5 Aminomutase In Complex
With Ornithine (Aerobic)
pdb|3KOZ|A Chain A, Crystal Structure Of Ornithine 4,5 Aminomutase In Complex
With Ornithine (Anaerobic)
pdb|3KOZ|B Chain B, Crystal Structure Of Ornithine 4,5 Aminomutase In Complex
With Ornithine (Anaerobic)
pdb|3KOZ|C Chain C, Crystal Structure Of Ornithine 4,5 Aminomutase In Complex
With Ornithine (Anaerobic)
pdb|3KOZ|D Chain D, Crystal Structure Of Ornithine 4,5 Aminomutase In Complex
With Ornithine (Anaerobic)
pdb|3KP0|A Chain A, Crystal Structure Of Ornithine 4,5 Aminomutase In Complex
With 2,4- Diaminobutyrate (Dab) (Aerobic)
pdb|3KP0|B Chain B, Crystal Structure Of Ornithine 4,5 Aminomutase In Complex
With 2,4- Diaminobutyrate (Dab) (Aerobic)
pdb|3KP0|C Chain C, Crystal Structure Of Ornithine 4,5 Aminomutase In Complex
With 2,4- Diaminobutyrate (Dab) (Aerobic)
pdb|3KP0|D Chain D, Crystal Structure Of Ornithine 4,5 Aminomutase In Complex
With 2,4- Diaminobutyrate (Dab) (Aerobic)
pdb|3KP1|A Chain A, Crystal Structure Of Ornithine 4,5 Aminomutase (Resting
State)
pdb|3KP1|B Chain B, Crystal Structure Of Ornithine 4,5 Aminomutase (Resting
State)
pdb|3KP1|D Chain D, Crystal Structure Of Ornithine 4,5 Aminomutase (Resting
State)
pdb|3KP1|C Chain C, Crystal Structure Of Ornithine 4,5 Aminomutase (Resting
State)
Length = 763
Score = 30.4 bits (67), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 27/49 (55%), Gaps = 4/49 (8%)
Query: 60 KPKLVKQDSY-SDQTRSPFRIFMETFVE---TCGSRELIDIDQKGFEKW 104
+P+++ +D D ++P +I T E + G RE+IDI G EK+
Sbjct: 585 EPEILSEDEIREDIEKTPLKIVAATVGEDEHSVGLREVIDIKHGGIEKY 633
>pdb|2YQI|A Chain A, Solution Structure Of The Second Hmg-Box Domain From High
Mobility Group Protein B3
Length = 81
Score = 30.4 bits (67), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 21/36 (58%)
Query: 93 LIDIDQKGFEKWKNMSKEERQPYVIKAEMLDAAHRR 128
+ D+ +K E W N++ E+QPY+ KA L + +
Sbjct: 37 IGDVAKKLGEMWNNLNDSEKQPYITKAAKLKEKYEK 72
>pdb|2EW8|A Chain A, Crystal Structure Of The (s)-specific 1-phenylethanol
Dehydrogenase Of The Denitrifying Bacterium Strain Ebn1
pdb|2EW8|B Chain B, Crystal Structure Of The (s)-specific 1-phenylethanol
Dehydrogenase Of The Denitrifying Bacterium Strain Ebn1
pdb|2EW8|C Chain C, Crystal Structure Of The (s)-specific 1-phenylethanol
Dehydrogenase Of The Denitrifying Bacterium Strain Ebn1
pdb|2EW8|D Chain D, Crystal Structure Of The (s)-specific 1-phenylethanol
Dehydrogenase Of The Denitrifying Bacterium Strain Ebn1
pdb|2EWM|A Chain A, Crystal Structure Of The (S)-Specific 1-Phenylethanol
Dehydrogenase Of The Denitrifying Bacterium Strain Ebn1
pdb|2EWM|B Chain B, Crystal Structure Of The (S)-Specific 1-Phenylethanol
Dehydrogenase Of The Denitrifying Bacterium Strain Ebn1
Length = 249
Score = 29.6 bits (65), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 32/70 (45%), Gaps = 2/70 (2%)
Query: 37 LVDMHECEAKVKNKVKRFKGV-CEKPKLVKQDSYSDQTRSPFRIFMETFVETCGSRELID 95
LV E EA ++N +R V C+ + +++ Q S F + V G LI
Sbjct: 39 LVPAPEAEAAIRNLGRRVLTVKCDVSQPGDVEAFGKQVISTFG-RCDILVNNAGIYPLIP 97
Query: 96 IDQKGFEKWK 105
D+ FE+WK
Sbjct: 98 FDELTFEQWK 107
>pdb|1J5N|A Chain A, Solution Structure Of The Non-Sequence-Specific Hmgb
Protein Nhp6a In Complex With Sry Dna
pdb|1LWM|A Chain A, Solution Structure Of The Sequence-Non-Specific Hmgb
Protein Nhp6a
Length = 93
Score = 28.9 bits (63), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 18/25 (72%)
Query: 96 IDQKGFEKWKNMSKEERQPYVIKAE 120
+ +K EKWK ++ EE+QPY KA+
Sbjct: 51 VGKKLGEKWKALTPEEKQPYEAKAQ 75
>pdb|1CG7|A Chain A, Hmg Protein Nhp6a From Saccharomyces Cerevisiae
Length = 93
Score = 28.9 bits (63), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 18/25 (72%)
Query: 96 IDQKGFEKWKNMSKEERQPYVIKAE 120
+ +K EKWK ++ EE+QPY KA+
Sbjct: 51 VGKKLGEKWKALTPEEKQPYEAKAQ 75
>pdb|2YWN|A Chain A, Crystal Structure Of Peroxiredoxin-Like Protein From
Sulfolobus Tokodaii
pdb|4G2E|A Chain A, Crystal Structure Of A Dimeric Prxq From Sulfolobus
Tokodaii
Length = 157
Score = 27.7 bits (60), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 19/35 (54%)
Query: 156 SYDPIYSTEILKCSNSSRFESLNTYNREVMDPWTL 190
S DP +S + K N F L+ YNREV+ + +
Sbjct: 71 SVDPPFSNKAFKEHNKLNFTILSDYNREVVKKYNV 105
>pdb|3CRV|A Chain A, "xpd_helicase"
pdb|3CRW|1 Chain 1, "xpd_apo"
Length = 551
Score = 27.7 bits (60), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 26/47 (55%)
Query: 129 ALLEEVTSMPRFMDDEADSAMVWKYDKSYDPIYSTEILKCSNSSRFE 175
AL+ ++ R + D D VW DK ++ +Y + LKC N+++ +
Sbjct: 504 ALVTIKQAIGRAIRDVNDKCNVWLLDKRFESLYWKKNLKCLNANKMK 550
>pdb|1Y17|A Chain A, Crystal Structure Of Aa-X-Bp-Ii, A Snake Venom Protein
With The Activity Of Binding To Coagulation Factor X
From Agkistrodon Acutus
Length = 129
Score = 26.6 bits (57), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 10/20 (50%), Positives = 14/20 (70%)
Query: 100 GFEKWKNMSKEERQPYVIKA 119
GF KW+N E+R P+V +A
Sbjct: 110 GFRKWENFYCEQRDPFVCEA 129
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 0.133 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,949,836
Number of Sequences: 62578
Number of extensions: 218990
Number of successful extensions: 556
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 540
Number of HSP's gapped (non-prelim): 24
length of query: 205
length of database: 14,973,337
effective HSP length: 94
effective length of query: 111
effective length of database: 9,091,005
effective search space: 1009101555
effective search space used: 1009101555
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: 49 (23.5 bits)