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= 024048
(273 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2H9U|A Chain A, Crystal Structure Of The Archaea Specific Dna Binding
Protein
pdb|3U6Y|A Chain A, Crystal Structure Of Alba2-Dna Complex
pdb|3U6Y|C Chain C, Crystal Structure Of Alba2-Dna Complex
Length = 102
Score = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 42/84 (50%), Gaps = 4/84 (4%)
Query: 31 NYISYAISLLEEKGANEVVLKATGRAINKTVMIAELLKRRVVGLHQNTSTGSIDITDVWX 90
NY+ ++ L E+G N+VV+KA GR IN+ V E++++R +N I I D
Sbjct: 18 NYVLAILTTLMEQGTNQVVVKARGRNINRAVDAVEIVRKR---FAKNIEIKDIKI-DSQE 73
Query: 91 XXXXXXXXXXTTRHVSAITITLSR 114
TR VS+I I L +
Sbjct: 74 IEVQTPEGQTRTRRVSSIEICLEK 97
>pdb|1NFH|A Chain A, Structure Of A Sir2 Substrate, Alba, Reveals A Mechanism
For Deactylation-Induced Enhancement Of Dna-Binding
pdb|1NFH|B Chain B, Structure Of A Sir2 Substrate, Alba, Reveals A Mechanism
For Deactylation-Induced Enhancement Of Dna-Binding
pdb|1NFJ|A Chain A, Structure Of A Sir2 Substrate, Alba, Reveals A Mechanism
For Deactylation-Induced Enhancement Of Dna-Binding
Length = 89
Score = 38.9 bits (89), Expect = 0.003, Method: Composition-based stats.
Identities = 19/40 (47%), Positives = 30/40 (75%), Gaps = 1/40 (2%)
Query: 31 NYISYAISLLEEKGANEVVLKATGRAINKTVMIAELLKRR 70
NY+ ++ L E GA+EVV+KA GRAI++ V +AE+++ R
Sbjct: 15 NYVLATLTQLNE-GADEVVIKARGRAISRAVDVAEIVRNR 53
>pdb|2BKY|A Chain A, Crystal Structure Of The Alba1:alba2 Heterodimer From
Sulfolobus Solfataricus
pdb|2BKY|B Chain B, Crystal Structure Of The Alba1:alba2 Heterodimer From
Sulfolobus Solfataricus
Length = 97
Score = 37.0 bits (84), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 29/40 (72%), Gaps = 1/40 (2%)
Query: 31 NYISYAISLLEEKGANEVVLKATGRAINKTVMIAELLKRR 70
NY+ A++LL + G +E+V+KA GRAI+K V E+++ R
Sbjct: 21 NYVLAALTLLNQ-GVSEIVIKARGRAISKAVDTVEIVRNR 59
>pdb|1H0X|A Chain A, Structure Of Alba: An Archaeal Chromatin Protein
Modulated By Acetylation
pdb|1H0X|B Chain B, Structure Of Alba: An Archaeal Chromatin Protein
Modulated By Acetylation
pdb|1H0Y|A Chain A, Structure Of Alba: An Archaeal Chromatin Protein
Modulated By Acetylation
Length = 100
Score = 37.0 bits (84), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 29/40 (72%), Gaps = 1/40 (2%)
Query: 31 NYISYAISLLEEKGANEVVLKATGRAINKTVMIAELLKRR 70
NY+ A++LL + G +E+V+KA GRAI+K V E+++ R
Sbjct: 24 NYVLAALTLLNQ-GVSEIVIKARGRAISKAVDTVEIVRNR 62
>pdb|1Y9X|A Chain A, Solution Structure Of Archaeon Dna-Binding Protein
Ssh10b
pdb|1Y9X|B Chain B, Solution Structure Of Archaeon Dna-Binding Protein
Ssh10b
Length = 97
Score = 37.0 bits (84), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 29/40 (72%), Gaps = 1/40 (2%)
Query: 31 NYISYAISLLEEKGANEVVLKATGRAINKTVMIAELLKRR 70
NY+ A++LL + G +E+V+KA GRAI+K V E+++ R
Sbjct: 21 NYVLAALTLLNQ-GVSEIVIKARGRAISKAVDTVEIVRNR 59
>pdb|2Z7C|B Chain B, Crystal Structure Of Chromatin Protein Alba From
Hyperthermophilic Archaeon Pyrococcus Horikoshii
pdb|2Z7C|D Chain D, Crystal Structure Of Chromatin Protein Alba From
Hyperthermophilic Archaeon Pyrococcus Horikoshii
pdb|2Z7C|A Chain A, Crystal Structure Of Chromatin Protein Alba From
Hyperthermophilic Archaeon Pyrococcus Horikoshii
pdb|2Z7C|C Chain C, Crystal Structure Of Chromatin Protein Alba From
Hyperthermophilic Archaeon Pyrococcus Horikoshii
Length = 93
Score = 37.0 bits (84), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 42/85 (49%), Gaps = 8/85 (9%)
Query: 31 NYISYAISLLEEKGANEVVLKATGRAINKTVMIAELLKRRVVGLHQNTSTGSIDITDVWX 90
NY+ I+ E GA EV +KA GRAI++ V +AE+++ R + +D+ ++
Sbjct: 16 NYVLAVITQFHE-GAKEVSIKARGRAISRAVDVAEIVRNRFLK-------DDVDVKEIKI 67
Query: 91 XXXXXXXXXXTTRHVSAITITLSRK 115
T + S I I L+RK
Sbjct: 68 GTEELPTADGRTTNTSTIEIVLARK 92
>pdb|1NH9|A Chain A, Crystal Structure Of A Dna Binding Protein Mja10b From
The Hyperthermophile Methanococcus Jannaschii
Length = 87
Score = 36.6 bits (83), Expect = 0.013, Method: Composition-based stats.
Identities = 16/39 (41%), Positives = 30/39 (76%), Gaps = 1/39 (2%)
Query: 33 ISYAISLLEEKGAN-EVVLKATGRAINKTVMIAELLKRR 70
++Y +++L + +N EV++KA G+AINK V +AE+++ R
Sbjct: 13 MNYVVAVLTQLTSNDEVIIKARGKAINKAVDVAEMIRNR 51
>pdb|2A2Y|A Chain A, Nmr Structue Of Sso10b2 From Sulfolobus Solfataricus
pdb|2A2Y|B Chain B, Nmr Structue Of Sso10b2 From Sulfolobus Solfataricus
Length = 89
Score = 32.0 bits (71), Expect = 0.43, Method: Composition-based stats.
Identities = 23/66 (34%), Positives = 35/66 (53%), Gaps = 3/66 (4%)
Query: 19 NELRITAQGRLRNYISYAISLLEEKGANEVVLKATGRAINKTVMIAELLKRRVVGLHQ-- 76
NE+ + + +++ I L + G +EV+LK TGR I+K V + LK R+ Q
Sbjct: 6 NEIVVRKTKNVEDHVLDVIVLFNQ-GIDEVILKGTGREISKAVDVYNSLKDRLGDGVQLV 64
Query: 77 NTSTGS 82
N TGS
Sbjct: 65 NVQTGS 70
>pdb|3TOE|A Chain A, Structure Of Mth10b
pdb|3TOE|B Chain B, Structure Of Mth10b
Length = 91
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 29/44 (65%), Gaps = 1/44 (2%)
Query: 29 LRNYISYAISLLEEKGANEVVLKATGRAINKTVMIAELLKRRVV 72
+ NY+ ++ + G +EV+LKA G AI++ V +AE+++ R +
Sbjct: 14 VMNYVLAVVTQMN-GGTSEVILKARGIAISRAVDVAEIVRNRFI 56
>pdb|1UDV|A Chain A, Crystal Structure Of The Hyperthermophilic Archaeal
Dna-Binding Protein Sso10b2 At 1.85 A
pdb|1UDV|B Chain B, Crystal Structure Of The Hyperthermophilic Archaeal
Dna-Binding Protein Sso10b2 At 1.85 A
pdb|2BKY|X Chain X, Crystal Structure Of The Alba1:alba2 Heterodimer From
Sulfolobus Solfataricus
pdb|2BKY|Y Chain Y, Crystal Structure Of The Alba1:alba2 Heterodimer From
Sulfolobus Solfataricus
Length = 89
Score = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 35/66 (53%), Gaps = 3/66 (4%)
Query: 19 NELRITAQGRLRNYISYAISLLEEKGANEVVLKATGRAINKTVMIAELLKRRVVGLHQ-- 76
NE+ + + +++ I L + G +EV+LK TGR I+K V + LK R+ Q
Sbjct: 6 NEIVVRKTKNVEDHVLDVIVLFNQ-GIDEVILKGTGREISKAVDVYNSLKDRLGDGVQLV 64
Query: 77 NTSTGS 82
N TGS
Sbjct: 65 NVQTGS 70
>pdb|1VM0|A Chain A, X-Ray Structure Of Gene Product From Arabidopsis
Thaliana At2g34160
pdb|1VM0|B Chain B, X-Ray Structure Of Gene Product From Arabidopsis
Thaliana At2g34160
pdb|2Q3V|A Chain A, Ensemble Refinement Of The Protein Crystal Structure Of
Gene Product From Arabidopsis Thaliana At2g34160
pdb|2Q3V|B Chain B, Ensemble Refinement Of The Protein Crystal Structure Of
Gene Product From Arabidopsis Thaliana At2g34160
Length = 130
Score = 29.3 bits (64), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 21/42 (50%)
Query: 46 NEVVLKATGRAINKTVMIAELLKRRVVGLHQNTSTGSIDITD 87
N+V L A G AI V + E+LK + + T +DI D
Sbjct: 47 NDVELSALGXAIATVVTVTEILKNNGFAVEKKIXTSIVDIKD 88
>pdb|3FOQ|A Chain A, Crystal Structure Of N-Acetylglucosamine-1-Phosphate
Uridyltransferase (Glmu) From Mycobacterium Tuberculosis
In A Cubic Space Group
Length = 503
Score = 28.9 bits (63), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 29/65 (44%), Gaps = 7/65 (10%)
Query: 32 YISYAISLLEEKG----ANEVVLKATGRAINKTVMIAEL---LKRRVVGLHQNTSTGSID 84
Y++ I++L G A+ V A +N V +AEL L RRVV HQ +D
Sbjct: 217 YLTDVIAILRSDGQTVHASHVDDSALVAGVNNRVQLAELASELNRRVVAAHQLAGVTVVD 276
Query: 85 ITDVW 89
W
Sbjct: 277 PATTW 281
>pdb|3SPT|A Chain A, Crystal Structure Of Glmu From Mycobacterium Tuberculosis
In Complex With Acetyl Coenzyme A And
Uridine-Diphosphate-N-Acetylglucosamine
pdb|3ST8|A Chain A, Crystal Structure Of Glmu From Mycobacterium Tuberculosis
In Complex With Coenzyme A, Glucosamine 1-Phosphate And
Uridine-Diphosphate-N- Acetylglucosamine
Length = 501
Score = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 29/65 (44%), Gaps = 7/65 (10%)
Query: 32 YISYAISLLEEKG----ANEVVLKATGRAINKTVMIAEL---LKRRVVGLHQNTSTGSID 84
Y++ I++L G A+ V A +N V +AEL L RRVV HQ +D
Sbjct: 215 YLTDVIAILRSDGQTVHASHVDDSALVAGVNNRVQLAELASELNRRVVAAHQLAGVTVVD 274
Query: 85 ITDVW 89
W
Sbjct: 275 PATTW 279
>pdb|3D8V|A Chain A, Crystal Structure Of Glmu From Mycobacterium Tuberculosis
In Complex With Uridine-Diphosphate-N-Acetylglucosamine
pdb|3D98|A Chain A, Crystal Structure Of Glmu From Mycobacterium Tuberculosis,
Ligand-Free Form
pdb|3DJ4|A Chain A, Crystal Structure Of Glmu From Mycobacterium Tuberculosis
In Complex With Uridine-Diphosphate-N-Acetylglucosamine.
pdb|3DK5|A Chain A, Crystal Structure Of Apo-Glmu From Mycobacterium
Tuberculosis
Length = 495
Score = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 29/65 (44%), Gaps = 7/65 (10%)
Query: 32 YISYAISLLEEKG----ANEVVLKATGRAINKTVMIAEL---LKRRVVGLHQNTSTGSID 84
Y++ I++L G A+ V A +N V +AEL L RRVV HQ +D
Sbjct: 209 YLTDVIAILRSDGQTVHASHVDDSALVAGVNNRVQLAELASELNRRVVAAHQLAGVTVVD 268
Query: 85 ITDVW 89
W
Sbjct: 269 PATTW 273
>pdb|2QKX|A Chain A, N-Acetyl Glucosamine 1-Phosphate Uridyltransferase From
Mycobacterium Tuberculosis Complex With N-Acetyl
Glucosamine 1-Phosphate
Length = 391
Score = 28.5 bits (62), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 29/65 (44%), Gaps = 7/65 (10%)
Query: 32 YISYAISLLEEKG----ANEVVLKATGRAINKTVMIAEL---LKRRVVGLHQNTSTGSID 84
Y++ I++L G A+ V A +N V +AEL L RRVV HQ +D
Sbjct: 211 YLTDVIAILRSDGQTVHASHVDDSALVAGVNNRVQLAELASELNRRVVAAHQLAGVTVVD 270
Query: 85 ITDVW 89
W
Sbjct: 271 PATTW 275
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
0.316 0.133 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,675,540
Number of Sequences: 62578
Number of extensions: 165176
Number of successful extensions: 273
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 260
Number of HSP's gapped (non-prelim): 17
length of query: 273
length of database: 14,973,337
effective HSP length: 97
effective length of query: 176
effective length of database: 8,903,271
effective search space: 1566975696
effective search space used: 1566975696
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (24.3 bits)