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= 023067
(288 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 34.7 bits (78), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 26/40 (65%), Gaps = 1/40 (2%)
Query: 29 IRNYITYATTLLQEKHAKEIVLKAMGQAINKTVAIAEIIK 68
+ NY+ A TLL + EIV+KA G+AI+K V EI++
Sbjct: 19 VMNYVLAALTLLNQ-GVSEIVIKARGRAISKAVDTVEIVR 57
>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 = 34.7 bits (78), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 35/62 (56%), Gaps = 2/62 (3%)
Query: 7 VEKPKPESPINENEIRITTQGAIRNYITYATTLLQEKHAKEIVLKAMGQAINKTVAIAEI 66
+EK +P N + I + + NY+ A TLL + EIV+KA G+AI+K V EI
Sbjct: 1 MEKMSSGTPTPSNVVLIGKK-PVMNYVLAALTLLNQ-GVSEIVIKARGRAISKAVDTVEI 58
Query: 67 IK 68
++
Sbjct: 59 VR 60
>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 = 34.7 bits (78), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 26/40 (65%), Gaps = 1/40 (2%)
Query: 29 IRNYITYATTLLQEKHAKEIVLKAMGQAINKTVAIAEIIK 68
+ NY+ A TLL + EIV+KA G+AI+K V EI++
Sbjct: 19 VMNYVLAALTLLNQ-GVSEIVIKARGRAISKAVDTVEIVR 57
>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 = 32.3 bits (72), Expect = 0.30, Method: Composition-based stats.
Identities = 17/40 (42%), Positives = 27/40 (67%), Gaps = 1/40 (2%)
Query: 29 IRNYITYATTLLQEKHAKEIVLKAMGQAINKTVAIAEIIK 68
+ NY+ T L E A E+V+KA G+AI++ V +AEI++
Sbjct: 13 VMNYVLATLTQLNEG-ADEVVIKARGRAISRAVDVAEIVR 51
>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 = 32.3 bits (72), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 29/49 (59%), Gaps = 1/49 (2%)
Query: 20 EIRITTQGAIRNYITYATTLLQEKHAKEIVLKAMGQAINKTVAIAEIIK 68
E+RI + + NY+ T L E+ ++V+KA G+ IN+ V EI++
Sbjct: 8 EVRIGRK-PVMNYVLAILTTLMEQGTNQVVVKARGRNINRAVDAVEIVR 55
>pdb|1NH9|A Chain A, Crystal Structure Of A Dna Binding Protein Mja10b From
The Hyperthermophile Methanococcus Jannaschii
Length = 87
Score = 32.0 bits (71), Expect = 0.40, Method: Composition-based stats.
Identities = 16/40 (40%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 29 IRNYITYATTLLQEKHAKEIVLKAMGQAINKTVAIAEIIK 68
+ NY+ T L E+++KA G+AINK V +AE+I+
Sbjct: 12 VMNYVVAVLTQLTSN--DEVIIKARGKAINKAVDVAEMIR 49
>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 = 31.6 bits (70), Expect = 0.48, Method: Composition-based stats.
Identities = 17/53 (32%), Positives = 30/53 (56%), Gaps = 1/53 (1%)
Query: 16 INENEIRITTQGAIRNYITYATTLLQEKHAKEIVLKAMGQAINKTVAIAEIIK 68
+ E + + + NY+ T E AKE+ +KA G+AI++ V +AEI++
Sbjct: 1 MTEEHVVYIGKKPVMNYVLAVITQFHEG-AKEVSIKARGRAISRAVDVAEIVR 52
>pdb|3TOE|A Chain A, Structure Of Mth10b
pdb|3TOE|B Chain B, Structure Of Mth10b
Length = 91
Score = 28.9 bits (63), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 24/40 (60%), Gaps = 1/40 (2%)
Query: 29 IRNYITYATTLLQEKHAKEIVLKAMGQAINKTVAIAEIIK 68
+ NY+ T + E++LKA G AI++ V +AEI++
Sbjct: 14 VMNYVLAVVTQMN-GGTSEVILKARGIAISRAVDVAEIVR 52
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
0.315 0.131 0.376
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,015,511
Number of Sequences: 62578
Number of extensions: 141835
Number of successful extensions: 240
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 232
Number of HSP's gapped (non-prelim): 8
length of query: 288
length of database: 14,973,337
effective HSP length: 98
effective length of query: 190
effective length of database: 8,840,693
effective search space: 1679731670
effective search space used: 1679731670
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)