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= 024420
(268 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2F7F|A Chain A, Crystal Structure Of Enterococcus Faecalis Putative
Nicotinate Phosphoribosyltransferase, New York
Structural Genomics Consortium
Length = 494
Score = 112 bits (281), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 83/262 (31%), Positives = 130/262 (49%), Gaps = 39/262 (14%)
Query: 1 MRSGVPNFCAVALALNDLGYKAVGIRLDSGDLAYLSCEARKFFRTIEKEFGVPDFEKMSI 60
+++GVP+ VA + D +G+R+DSGD+AY+S + + ++ F + I
Sbjct: 238 LKAGVPSAIRVAREMGD-KINFLGVRIDSGDMAYIS-------KRVREQLDEAGFTEAKI 289
Query: 61 TASNDLNEETLDALNKQGHEVDAFGIGTYLVTCYAQAALGCVFKLVEI-----NKQPRIK 115
ASNDL+E T+ L Q ++D +G+GT L+T Y Q ALG VFKLV I + IK
Sbjct: 290 YASNDLDENTILNLKMQKSKIDVWGVGTKLITAYDQPALGAVFKLVSIEGEDGQMKDTIK 349
Query: 116 LSEDVSKVSIPCKKRSYRLYGK-----EGYPLVDIMTGENEPPPKVGERILCRHPFNESK 170
LS + KV+ P KK+ +R+ K EG D +T NE P+ E I HP +
Sbjct: 350 LSSNAEKVTTPGKKQVWRITRKSDKKSEG----DYVTLWNE-DPRQEEEIYMFHPVHTFI 404
Query: 171 RAYVVPQKVEELLKCYWPGSSGGDYPMVFGDVQFLNKRREDLPTLKDTRERCIKQLEQMR 230
YV + +L+ D+ KR +LPTL + ++ + L+ +
Sbjct: 405 NKYVRDFEARPVLQ----------------DIFVEGKRVYELPTLDEIKQYAKENLDSLH 448
Query: 231 PDHMRRLNPTPYKVSVSAKLYD 252
++ R LNP Y V +S ++
Sbjct: 449 EEYKRDLNPQKYPVDLSTDCWN 470
>pdb|1VLP|A Chain A, Crystal Structure Of A Putative Nicotinate
Phosphoribosyltransferase (Yor209c, Npt1) From
Saccharomyces Cerevisiae At 1.75 A Resolution
pdb|1VLP|B Chain B, Crystal Structure Of A Putative Nicotinate
Phosphoribosyltransferase (Yor209c, Npt1) From
Saccharomyces Cerevisiae At 1.75 A Resolution
pdb|1VLP|C Chain C, Crystal Structure Of A Putative Nicotinate
Phosphoribosyltransferase (Yor209c, Npt1) From
Saccharomyces Cerevisiae At 1.75 A Resolution
pdb|1VLP|D Chain D, Crystal Structure Of A Putative Nicotinate
Phosphoribosyltransferase (Yor209c, Npt1) From
Saccharomyces Cerevisiae At 1.75 A Resolution
Length = 441
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 33/111 (29%), Positives = 52/111 (46%), Gaps = 15/111 (13%)
Query: 23 VGIRLDSGDLAYLSCEARKFFRTIEKEFGVPDFEKMSITASNDLNEE---TLDALNKQGH 79
VG+R DSGD + + + + K +P F K+ I S+ LN E T K+
Sbjct: 303 VGVRQDSGDPVEYTKKISHHYHDVLK---LPKFSKI-ICYSDSLNVEKAITYSHAAKENG 358
Query: 80 EVDAFGIGTYLVTCYAQAA--------LGCVFKLVEINKQPRIKLSEDVSK 122
+ FGIGT + + + L V KL+E+N IK+S+++ K
Sbjct: 359 XLATFGIGTNFTNDFRKKSEPQVKSEPLNIVIKLLEVNGNHAIKISDNLGK 409
>pdb|3AE0|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
Synthase From Staphylococcus Aureus Complexed With
Geranylgeranyl Thiopyrophosphate
pdb|3AE0|B Chain B, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
Synthase From Staphylococcus Aureus Complexed With
Geranylgeranyl Thiopyrophosphate
Length = 293
Score = 29.3 bits (64), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 35/66 (53%), Gaps = 7/66 (10%)
Query: 155 KVGERILCRHPFNESKRAYVVPQKVEELLKCYWPGSSG----GDYPMVFGDVQFLNKRRE 210
K +I+ +H + S A ++P E+ K W + D V+GD+QFLN+ +E
Sbjct: 15 KYCHKIMKKHSKSFSYAADLLP---EDQRKAVWAIYAVCRKIDDSIDVYGDIQFLNQIKE 71
Query: 211 DLPTLK 216
D+ +++
Sbjct: 72 DIQSIE 77
>pdb|1CHK|A Chain A, Streptomyces N174 Chitosanase Ph5.5 298k
pdb|1CHK|B Chain B, Streptomyces N174 Chitosanase Ph5.5 298k
Length = 238
Score = 28.9 bits (63), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 34/87 (39%), Gaps = 4/87 (4%)
Query: 71 LDALNKQGHEVDAFGIGTYLVTCYAQAALGCVFKLVEINKQPRIKLSEDVSKVSIPCKKR 130
L AL K G+GT +A AA VF+ + +++ R+ VS+ K
Sbjct: 78 LPALKKVNGSASHSGLGTPFTKDWATAAKDTVFQQAQNDERDRVYFDPAVSQ----AKAD 133
Query: 131 SYRLYGKEGYPLVDIMTGENEPPPKVG 157
R G+ Y +M G P G
Sbjct: 134 GLRALGQFAYYDAIVMHGPGNDPTSFG 160
>pdb|3VJD|A Chain A, Crystal Structure Of The Y248a Mutant Of C(30) Carotenoid
Dehydrosqualene Synthase From Staphylococcus Aureus
pdb|3VJE|A Chain A, Crystal Structure Of The Y248a Mutant Of C(30) Carotenoid
Dehydrosqualene Synthase From Staphylococcus Aureus In
Complex With Zaragozic Acid A
pdb|3VJE|B Chain B, Crystal Structure Of The Y248a Mutant Of C(30) Carotenoid
Dehydrosqualene Synthase From Staphylococcus Aureus In
Complex With Zaragozic Acid A
Length = 293
Score = 28.5 bits (62), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 9/19 (47%), Positives = 17/19 (89%)
Query: 198 VFGDVQFLNKRREDLPTLK 216
V+GD+QFLN+ +ED+ +++
Sbjct: 59 VYGDIQFLNQIKEDIQSIE 77
>pdb|3ADZ|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
Synthase From Staphylococcus Aureus Complexed With
Intermediate Pspp
pdb|3LGZ|B Chain B, Crystal Structure Of Dehydrosqualene Synthase Y129a From
S. Aureus Complexed With Presqualene Pyrophosphate
Length = 293
Score = 28.5 bits (62), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 9/19 (47%), Positives = 17/19 (89%)
Query: 198 VFGDVQFLNKRREDLPTLK 216
V+GD+QFLN+ +ED+ +++
Sbjct: 59 VYGDIQFLNQIKEDIQSIE 77
>pdb|2ZCO|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
Synthase From Staphylococcus Aureus
pdb|2ZCP|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
Synthase From Staphylococcus Aureus Complexed With
Farnesyl Thiopyrophosphate
pdb|2ZCP|B Chain B, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
Synthase From Staphylococcus Aureus Complexed With
Farnesyl Thiopyrophosphate
pdb|2ZCQ|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
Synthase From Staphylococcus Aureus Complexed With
Bisphosphonate Bph-652
pdb|2ZCR|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
Synthase From Staphylococcus Aureus Complexed With
Bisphosphonate Bph-698
pdb|2ZCS|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
Synthase From Staphylococcus Aureus Complexed With
Bisphosphonate Bph-700
pdb|2ZY1|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
Synthase From Staphylococcus Aureus Complexed With
Bisphosphonate Bph-830
pdb|3ACW|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
Synthase From Staphylococcus Aureus Complexed With
Bph-651
pdb|3ACX|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
Synthase From Staphylococcus Aureus Complexed With
Bph-673
pdb|3ACY|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
Synthase From Staphylococcus Aureus Complexed With
Bph-702
pdb|3NPR|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
Synthase From S. Aureus Complexed With Presqualene
Diphosphate (Pspp)
pdb|3NRI|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
Synthase From S. Aureus Complexed With Dehydrosqualene
(Dhs)
pdb|3TFN|A Chain A, Crystal Structure Of Dehydrosqualene Synthase (Crtm) From
S. Aureus Complexed With Bph-1183
pdb|3TFP|A Chain A, Crystal Structure Of Dehydrosqualene Synthase (Crtm) From
S. Aureus Complexed With Bph-1162
pdb|3TFV|A Chain A, Crystal Structure Of Dehydrosqualene Synthase (Crtm) From
S. Aureus Complexed With Bph-1154
Length = 293
Score = 28.5 bits (62), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 9/19 (47%), Positives = 17/19 (89%)
Query: 198 VFGDVQFLNKRREDLPTLK 216
V+GD+QFLN+ +ED+ +++
Sbjct: 59 VYGDIQFLNQIKEDIQSIE 77
>pdb|4E9U|A Chain A, Crystal Structure Of Dehydrosqualene Synthase (Crtm) From
S. Aureus Complexed With A Thiocyanate Inhibitor
pdb|4E9Z|A Chain A, Crystal Structure Of Dehydrosqualene Synthase (Crtm) From
S. Aureus Complexed With Quinuclidine Bph-651 In The S1
Site
pdb|4EA0|A Chain A, Crystal Structure Of Dehydrosqualene Synthase (Crtm) From
S. Aureus Complexed With Diphosphate And Quinuclidine
Bph-651
pdb|4EA0|B Chain B, Crystal Structure Of Dehydrosqualene Synthase (Crtm) From
S. Aureus Complexed With Diphosphate And Quinuclidine
Bph-651
pdb|4EA1|A Chain A, Co-Crystal Structure Of Dehydrosqualene Synthase (Crtm)
From S. Aureus With Sq-109
pdb|4EA2|A Chain A, Crystal Structure Of Dehydrosqualene Synthase (Crtm)
Aureus Complexed With Sq-109
Length = 287
Score = 28.5 bits (62), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 9/19 (47%), Positives = 17/19 (89%)
Query: 198 VFGDVQFLNKRREDLPTLK 216
V+GD+QFLN+ +ED+ +++
Sbjct: 53 VYGDIQFLNQIKEDIQSIE 71
>pdb|4F6V|A Chain A, Crystal Structure Of Dehydrosqualene Synthase (Crtm) From
S. Aureus Complexed With Bph-1034, Mg2+ And Fmp.
pdb|4F6X|A Chain A, Crystal Structure Of Dehydrosqualene Synthase (Crtm) From
S. Aureus Complexed With Bph-1112
Length = 292
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 9/19 (47%), Positives = 17/19 (89%)
Query: 198 VFGDVQFLNKRREDLPTLK 216
V+GD+QFLN+ +ED+ +++
Sbjct: 58 VYGDIQFLNQIKEDIQSIE 76
>pdb|1OLR|A Chain A, The Humicola Grisea Cel12a Enzyme Structure At 1.2 A
Resolution
pdb|1UU4|A Chain A, X-Ray Crystal Structure Of The Catalytic Domain Of
Humicola Grisea Cel12a In Complex With Cellobiose
pdb|1UU5|A Chain A, X-Ray Crystal Structure Of The Catalytic Domain Of
Humicola Grisea Cel12a Soaked With Cellotetraose
pdb|1UU6|A Chain A, X-Ray Crystal Structure Of The Catalytic Domain Of
Humicola Grisea Cel12a In Complex With A Soaked
Cellopentaose
pdb|1W2U|A Chain A, X-Ray Crystal Structure Of The Catalytic Domain Of
Humicola Grisea Cel12a In Complex With A Soaked Thio
Cellotetraose
Length = 224
Score = 28.1 bits (61), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 18/32 (56%)
Query: 29 SGDLAYLSCEARKFFRTIEKEFGVPDFEKMSI 60
SGD+ SC+ + FF +E+ G P E+ I
Sbjct: 167 SGDIRDFSCDIKDFFNYLERNHGYPAREQNLI 198
>pdb|3OS4|A Chain A, The Crystal Structure Of Nicotinate
Phosphoribosyltransferase From Yersinia Pestis
pdb|3OS4|B Chain B, The Crystal Structure Of Nicotinate
Phosphoribosyltransferase From Yersinia Pestis
Length = 407
Score = 28.1 bits (61), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 34/104 (32%), Positives = 49/104 (47%), Gaps = 10/104 (9%)
Query: 24 GIRLDSGDLAYLSCEARKFFRTIEKEFGVPDFEKMSITASNDLNEETLDALNKQGHEVD- 82
G+R DSGD +A + ++ G+ D K + S++L+ E L + ++
Sbjct: 280 GLRHDSGDPIEWGEKAIAHY----EKLGI-DPXKKVLVFSDNLDLEKALFLYRHFYQRIK 334
Query: 83 -AFGIGTYLVTCYAQAA--LGCVFKLVEINKQPRIKLSEDVSKV 123
FGIGT L TC L V KLVE N +P KLS+ K
Sbjct: 335 LVFGIGTRL-TCDIPDVKPLNIVIKLVECNDKPVAKLSDSPGKT 377
>pdb|3OC9|A Chain A, Crystal Structure Of Putative Udp-N-Acetylglucosamine
Pyrophosphorylase From Entamoeba Histolytica
Length = 405
Score = 27.7 bits (60), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 19/36 (52%)
Query: 67 NEETLDALNKQGHEVDAFGIGTYLVTCYAQAALGCV 102
NEET++ +N E FG+ + + C+ Q L V
Sbjct: 101 NEETIEEINNYFKEHQYFGLSSEQIHCFPQGMLPVV 136
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 0.139 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,347,454
Number of Sequences: 62578
Number of extensions: 353073
Number of successful extensions: 786
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 774
Number of HSP's gapped (non-prelim): 14
length of query: 268
length of database: 14,973,337
effective HSP length: 97
effective length of query: 171
effective length of database: 8,903,271
effective search space: 1522459341
effective search space used: 1522459341
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: 50 (23.9 bits)