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= 017023
(379 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3E3A|A Chain A, The Structure Of Rv0554 From Mycobacterium Tuberculosis
pdb|3E3A|B Chain B, The Structure Of Rv0554 From Mycobacterium Tuberculosis
pdb|3HSS|A Chain A, A Higher Resolution Structure Of Rv0554 From
Mycobacterium Tuberculosis Complexed With Malonic Acid
pdb|3HSS|B Chain B, A Higher Resolution Structure Of Rv0554 From
Mycobacterium Tuberculosis Complexed With Malonic Acid
pdb|3HYS|A Chain A, Structure Of Rv0554 From Mycobacterium Tuberculosis
Complexed With Malonic Acid
pdb|3HYS|B Chain B, Structure Of Rv0554 From Mycobacterium Tuberculosis
Complexed With Malonic Acid
pdb|3HZO|A Chain A, Rv0554 From Mycobacterium Tuberculosis - The Structure
Solved From The Tetragonal Crystal Form
pdb|3HZO|B Chain B, Rv0554 From Mycobacterium Tuberculosis - The Structure
Solved From The Tetragonal Crystal Form
Length = 293
Score = 33.5 bits (75), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 28/59 (47%), Gaps = 1/59 (1%)
Query: 27 SIAYDSNTSPPPIAFICGAKNCGKTTFSRHLVNVLLQRYKKVAYLDTDVGQPEFTAPGF 85
++AYD N + P+ FI G G+T + L Y+ + + + +G E A GF
Sbjct: 34 NLAYDDNGTGDPVVFIAGRGGAGRTWHPHQVPAFLAAGYRCITFDNRGIGATE-NAEGF 91
>pdb|1SHK|A Chain A, The Three-dimensional Structure Of Shikimate Kinase From
Erwinia Chrysanthemi
pdb|2SHK|A Chain A, The Three-Dimensional Structure Of Shikimate Kinase From
Erwinia Chrysanthemi Complexed With Adp
pdb|1SHK|B Chain B, The Three-dimensional Structure Of Shikimate Kinase From
Erwinia Chrysanthemi
pdb|2SHK|B Chain B, The Three-Dimensional Structure Of Shikimate Kinase From
Erwinia Chrysanthemi Complexed With Adp
Length = 173
Score = 32.3 bits (72), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 19/35 (54%), Gaps = 5/35 (14%)
Query: 41 FICGAKNCGKTTFSRHLVNVLLQRYKKVAYLDTDV 75
F+ GA+ CGKTT R L L ++DTD+
Sbjct: 6 FMVGARGCGKTTVGRELARAL-----GYEFVDTDI 35
>pdb|2NPI|A Chain A, Clp1-Atp-Pcf11 Complex
pdb|2NPI|B Chain B, Clp1-Atp-Pcf11 Complex
Length = 460
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 26/49 (53%), Gaps = 3/49 (6%)
Query: 38 PIAFICGAKNCGKTTFSRHLVNVLLQ--RYKKVAYLDTDVGQPEFTAPG 84
P I G GKT+ SR L + L+ Y+ + Y++ D QP FT PG
Sbjct: 139 PRVVIVGGSQTGKTSLSRTLCSYALKFNAYQPL-YINLDPQQPIFTVPG 186
>pdb|1D02|A Chain A, Crystal Structure Of Muni Restriction Endonuclease In
Complex With Cognate Dna
pdb|1D02|B Chain B, Crystal Structure Of Muni Restriction Endonuclease In
Complex With Cognate Dna
Length = 202
Score = 29.3 bits (64), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 24/37 (64%), Gaps = 3/37 (8%)
Query: 111 FFGDVSSKRDPTAYLKYITTLYDYYRKEYYMFNESES 147
F GD++ RDP ++ IT YD+Y+ Y+M+ +ES
Sbjct: 152 FEGDIT--RDPKR-VREITFWYDHYQDNYFMWRPNES 185
>pdb|1EFW|A Chain A, Crystal Structure Of Aspartyl-Trna Synthetase From Thermus
Thermophilus Complexed To Trnaasp From Escherichia Coli
pdb|1EFW|B Chain B, Crystal Structure Of Aspartyl-Trna Synthetase From Thermus
Thermophilus Complexed To Trnaasp From Escherichia Coli
pdb|1G51|A Chain A, Aspartyl Trna Synthetase From Thermus Thermophilus At 2.4
A Resolution
pdb|1G51|B Chain B, Aspartyl Trna Synthetase From Thermus Thermophilus At 2.4
A Resolution
pdb|1L0W|A Chain A, Aspartyl-Trna Synthetase-1 From Space-Grown Crystals
pdb|1L0W|B Chain B, Aspartyl-Trna Synthetase-1 From Space-Grown Crystals
Length = 580
Score = 28.9 bits (63), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 21/34 (61%)
Query: 140 YMFNESESPGRTELPLIVNTPGWVKGIGYDILVD 173
YM + SP +LPL+ PG V+ + YD++++
Sbjct: 440 YMHHPFTSPHPEDLPLLEKDPGRVRALAYDLVLN 473
>pdb|2XIT|A Chain A, Crystal Structure Of Monomeric Mipz
pdb|2XIT|B Chain B, Crystal Structure Of Monomeric Mipz
Length = 294
Score = 28.9 bits (63), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 18/31 (58%)
Query: 47 NCGKTTFSRHLVNVLLQRYKKVAYLDTDVGQ 77
GK+T + HLV LL KVA +D D+ Q
Sbjct: 15 GAGKSTIAVHLVTALLYGGAKVAVIDLDLRQ 45
>pdb|2XJ4|A Chain A, Structure Of The Bacterial Cell Division Regulator
Protein Mipz
Length = 286
Score = 28.9 bits (63), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 18/31 (58%)
Query: 47 NCGKTTFSRHLVNVLLQRYKKVAYLDTDVGQ 77
GK+T + HLV LL KVA +D D+ Q
Sbjct: 15 GAGKSTIAVHLVTALLYGGAKVAVIDLDLRQ 45
>pdb|2XXA|A Chain A, The Crystal Structure Of The Signal Recognition Particle
(Srp) In Complex With Its Receptor(Sr)
pdb|2XXA|C Chain C, The Crystal Structure Of The Signal Recognition Particle
(Srp) In Complex With Its Receptor(Sr)
Length = 433
Score = 28.5 bits (62), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 1/46 (2%)
Query: 34 TSPPPIAFICGAKNCGKTTFSRHLVNVLLQRY-KKVAYLDTDVGQP 78
PP + + G + GKTT L L +++ KKV + DV +P
Sbjct: 97 AQPPAVVLMAGLQGAGKTTSVGKLGKFLREKHKKKVLVVSADVYRP 142
>pdb|2J28|9 Chain 9, Model Of E. Coli Srp Bound To 70s Rncs
Length = 430
Score = 28.5 bits (62), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 1/46 (2%)
Query: 34 TSPPPIAFICGAKNCGKTTFSRHLVNVLLQRY-KKVAYLDTDVGQP 78
PP + + G + GKTT L L +++ KKV + DV +P
Sbjct: 96 AQPPAVVLMAGLQGAGKTTSVGKLGKFLREKHKKKVLVVSADVYRP 141
>pdb|4B8B|A Chain A, N-Terminal Domain Of The Yeast Not1
pdb|4B8B|B Chain B, N-Terminal Domain Of The Yeast Not1
Length = 603
Score = 28.5 bits (62), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 43/95 (45%), Gaps = 17/95 (17%)
Query: 184 VKINISFEKKNLPAGAFWLDNFEGVDVNLIEISSARQD--------SFNRSVLVQKDARL 235
+ + I K ++ G F L N EG I + +Q S N + +Q++
Sbjct: 155 LDLAIQLHKWSVQNGCFDLLNAEGTRKVSETIPNTKQSLLYLLSIASLNLELFLQREE-- 212
Query: 236 LRDLRIMAYFRQCFPSDLN-------ITIIKELAQ 263
L D ++AYF++CF D N + ++KE+ +
Sbjct: 213 LSDGPMLAYFQECFFEDFNYAPEYLILALVKEMKR 247
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
0.322 0.139 0.426
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,045,074
Number of Sequences: 62578
Number of extensions: 446737
Number of successful extensions: 1207
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1201
Number of HSP's gapped (non-prelim): 12
length of query: 379
length of database: 14,973,337
effective HSP length: 100
effective length of query: 279
effective length of database: 8,715,537
effective search space: 2431634823
effective search space used: 2431634823
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)