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= 044148
(996 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1F48|A Chain A, Crystal Structure Of The Escherichia Coli
Arsenite-Translocating Atpase
pdb|1IHU|A Chain A, Crystal Structure Of The Escherichia Coli
Arsenite-Translocating Atpase In Complex With
Mg-Adp-Alf3
pdb|1II0|A Chain A, Crystal Structure Of The Escherichia Coli
Arsenite-Translocating Atpase
pdb|1II0|B Chain B, Crystal Structure Of The Escherichia Coli
Arsenite-Translocating Atpase
pdb|1II9|A Chain A, Crystal Structure Of The Escherichia Coli Arsenite-
Translocating Atpase In Complex With Amp-Pnp
pdb|1II9|B Chain B, Crystal Structure Of The Escherichia Coli Arsenite-
Translocating Atpase In Complex With Amp-Pnp
Length = 589
Score = 33.5 bits (75), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 30/105 (28%), Positives = 48/105 (45%), Gaps = 18/105 (17%)
Query: 818 LIIHSAI-RTEKFIDSTSKSMWETELEEYVGLVQDFFLLPQVIGNFLWQTDCKPLRKLYF 876
L+I+ + +TE D+ + ++WE E E L D LP TD L+ +
Sbjct: 232 LVINGVLPKTEAANDTLAAAIWEREQEALANLPADLAGLP---------TDTLFLQPVNM 282
Query: 877 IGITVV-RLLPHVYDYTRSPVPNPYFSDEYEFANPNLDFYSKFGD 920
+G++ + RLL + PV +P SDEY P++ S D
Sbjct: 283 VGVSALSRLL------STQPVASPS-SDEYLQQRPDIPSLSALVD 320
>pdb|1VKP|A Chain A, X-Ray Structure Of Gene Product From Arabidopsis Thaliana
At5g08170, Agmatine Iminohydrolase
pdb|1VKP|B Chain B, X-Ray Structure Of Gene Product From Arabidopsis Thaliana
At5g08170, Agmatine Iminohydrolase
pdb|2Q3U|A Chain A, Ensemble Refinement Of The Protein Crystal Structure Of
Gene Product From Arabidopsis Thaliana At5g08170,
Agmatine Iminohydrolase
pdb|2Q3U|B Chain B, Ensemble Refinement Of The Protein Crystal Structure Of
Gene Product From Arabidopsis Thaliana At5g08170,
Agmatine Iminohydrolase
Length = 383
Score = 31.2 bits (69), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 34/74 (45%), Gaps = 2/74 (2%)
Query: 785 LLSRSPNEPHRVPS-DKLVLLTTSAIHVTGYILVLIIHSAIRTEKFIDSTSKSMWETELE 843
L+SR R+P +L +IHV G L+ + + SK E EL+
Sbjct: 141 LVSRKILALERIPRFQHSXILEGGSIHVDGEGTCLVTEECLLNKNRNPHXSKEQIEEELK 200
Query: 844 EYVGLVQDFFLLPQ 857
+Y+G VQ F LP+
Sbjct: 201 KYLG-VQSFIWLPR 213
>pdb|3H7C|X Chain X, Crystal Structure Of Arabidopsis Thaliana Agmatine
Deiminase From Cell Free Expression
Length = 383
Score = 31.2 bits (69), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 34/74 (45%), Gaps = 2/74 (2%)
Query: 785 LLSRSPNEPHRVPS-DKLVLLTTSAIHVTGYILVLIIHSAIRTEKFIDSTSKSMWETELE 843
L+SR R+P +L +IHV G L+ + + SK E EL+
Sbjct: 141 LVSRKILALERIPRFQHSXILEGGSIHVDGEGTCLVTEECLLNKNRNPHXSKEQIEEELK 200
Query: 844 EYVGLVQDFFLLPQ 857
+Y+G VQ F LP+
Sbjct: 201 KYLG-VQSFIWLPR 213
>pdb|3H7K|A Chain A, Crystal Structure Of Arabidopsis Thaliana Agmatine
Deiminase Complexed With A Covalently Bound Reaction
Intermediate
Length = 383
Score = 31.2 bits (69), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 34/74 (45%), Gaps = 2/74 (2%)
Query: 785 LLSRSPNEPHRVPS-DKLVLLTTSAIHVTGYILVLIIHSAIRTEKFIDSTSKSMWETELE 843
L+SR R+P +L +IHV G L+ + + SK E EL+
Sbjct: 141 LVSRKILALERIPRFQHSXILEGGSIHVDGEGTCLVTEECLLNKNRNPHXSKEQIEEELK 200
Query: 844 EYVGLVQDFFLLPQ 857
+Y+G VQ F LP+
Sbjct: 201 KYLG-VQSFIWLPR 213
>pdb|4APC|A Chain A, Crystal Structure Of Human Nima-Related Kinase 1 (Nek1)
pdb|4APC|B Chain B, Crystal Structure Of Human Nima-Related Kinase 1 (Nek1)
pdb|4B9D|A Chain A, Crystal Structure Of Human Nima-Related Kinase 1 (Nek1)
With Inhibitor.
pdb|4B9D|B Chain B, Crystal Structure Of Human Nima-Related Kinase 1 (Nek1)
With Inhibitor
Length = 350
Score = 30.8 bits (68), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 39/78 (50%), Gaps = 6/78 (7%)
Query: 706 FAIACILSQLFYIKHNLDSNPFMSLVMLGVQ------ALGYSLPLITGAEALFKRKDSEY 759
+A+ C+L +L +KH ++ +LV+ + +L YS L + LFKR +
Sbjct: 209 WALGCVLYELCTLKHAFEAGSMKNLVLKIISGSFPPVSLHYSYDLRSLVSQLFKRNPRDR 268
Query: 760 QNTSYNLEKNQCSKLMQK 777
+ + LEK +K ++K
Sbjct: 269 PSVNSILEKGFIAKRIEK 286
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
0.319 0.135 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 29,745,887
Number of Sequences: 62578
Number of extensions: 1249709
Number of successful extensions: 2606
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 2602
Number of HSP's gapped (non-prelim): 9
length of query: 996
length of database: 14,973,337
effective HSP length: 108
effective length of query: 888
effective length of database: 8,214,913
effective search space: 7294842744
effective search space used: 7294842744
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: 56 (26.2 bits)