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= 002620
         (899 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|2WK7|A Chain A, Structure Of Apo Form Of Vibrio Cholerae Cqsa
 pdb|2WK7|B Chain B, Structure Of Apo Form Of Vibrio Cholerae Cqsa
          Length = 393

 Score = 32.7 bits (73), Expect = 0.81,   Method: Compositional matrix adjust.
 Identities = 18/48 (37%), Positives = 24/48 (50%), Gaps = 3/48 (6%)

Query: 692 PVLSPESSLFVLKSNKQVAYQDILKILDPAKFCSSAQNFIDMYLRLPG 739
           P  S   ++  L  N  V  + I KI++    CS A N+ D Y RLPG
Sbjct: 348 PATSKNKNIIRLSLNSDVNDEQIAKIIE---VCSDAVNYGDFYFRLPG 392


>pdb|1XRJ|A Chain A, Rapid Structure Determination Of Human Uridine-Cytidine
           Kinase 2 Using A Conventional Laboratory X-Ray Source
           And A Single Samarium Derivative
 pdb|1XRJ|B Chain B, Rapid Structure Determination Of Human Uridine-Cytidine
           Kinase 2 Using A Conventional Laboratory X-Ray Source
           And A Single Samarium Derivative
          Length = 261

 Score = 31.6 bits (70), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 18/70 (25%), Positives = 41/70 (58%), Gaps = 2/70 (2%)

Query: 107 DSIDFDALVQNLQDLTEGKDTLIPMFDYQQKNRIGSKVIKGASSGVVIVDGTYALDAR-L 165
           D+ D + +++ L+++TEGK   IP++D+   +R   + +    + VV+ +G  A  ++ +
Sbjct: 87  DAFDNELILKTLKEITEGKTVQIPVYDFVSHSR-KEETVTVYPADVVLFEGILAFYSQEV 145

Query: 166 RSLLDIRVAV 175
           R L  +++ V
Sbjct: 146 RDLFQMKLFV 155


>pdb|1UDW|A Chain A, Crystal Structure Of Human Uridine-cytidine Kinase 2
           Complexed With A Feedback-inhibitor, Ctp
 pdb|1UDW|B Chain B, Crystal Structure Of Human Uridine-cytidine Kinase 2
           Complexed With A Feedback-inhibitor, Ctp
 pdb|1UEI|A Chain A, Crystal Structure Of Human Uridine-Cytidine Kinase 2
           Complexed With A Feedback-Inhibitor, Utp
 pdb|1UEI|B Chain B, Crystal Structure Of Human Uridine-Cytidine Kinase 2
           Complexed With A Feedback-Inhibitor, Utp
 pdb|1UEJ|A Chain A, Crystal Structure Of Human Uridine-Cytidine Kinase 2
           Complexed With A Substrate, Cytidine
 pdb|1UEJ|B Chain B, Crystal Structure Of Human Uridine-Cytidine Kinase 2
           Complexed With A Substrate, Cytidine
 pdb|1UFQ|A Chain A, Crystal Structure Of Ligand-Free Human Uridine-Cytidine
           Kinase 2
 pdb|1UFQ|B Chain B, Crystal Structure Of Ligand-Free Human Uridine-Cytidine
           Kinase 2
 pdb|1UFQ|C Chain C, Crystal Structure Of Ligand-Free Human Uridine-Cytidine
           Kinase 2
 pdb|1UFQ|D Chain D, Crystal Structure Of Ligand-Free Human Uridine-Cytidine
           Kinase 2
 pdb|1UJ2|A Chain A, Crystal Structure Of Human Uridine-cytidine Kinase 2
           Complexed With Products, Cmp And Adp
 pdb|1UJ2|B Chain B, Crystal Structure Of Human Uridine-cytidine Kinase 2
           Complexed With Products, Cmp And Adp
          Length = 252

 Score = 31.6 bits (70), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 18/70 (25%), Positives = 41/70 (58%), Gaps = 2/70 (2%)

Query: 107 DSIDFDALVQNLQDLTEGKDTLIPMFDYQQKNRIGSKVIKGASSGVVIVDGTYALDAR-L 165
           D+ D + +++ L+++TEGK   IP++D+   +R   + +    + VV+ +G  A  ++ +
Sbjct: 89  DAFDNELILKTLKEITEGKTVQIPVYDFVSHSR-KEETVTVYPADVVLFEGILAFYSQEV 147

Query: 166 RSLLDIRVAV 175
           R L  +++ V
Sbjct: 148 RDLFQMKLFV 157


>pdb|3H9N|A Chain A, Crystal Structure Of The Ribosome Maturation Factor Rimm
           (Hi0203) From H.Influenzae. Northeast Structural
           Genomics Consortium Target Ir66
          Length = 177

 Score = 30.8 bits (68), Expect = 3.2,   Method: Composition-based stats.
 Identities = 19/53 (35%), Positives = 30/53 (56%), Gaps = 2/53 (3%)

Query: 85  VIGCTLISMENYRVG-VDEGNDLDSIDFDALVQNLQDLTEGKDTLIPMFDYQQ 136
           +IGCT++++E Y  G V E  +  S D   +  N +D    ++ LIP F Y+Q
Sbjct: 100 LIGCTVVNLEGYTXGTVTEXXETGSNDVLVVKANTKDAFGKQERLIP-FLYEQ 151


  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
   0.321    0.137    0.395 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,345,100
Number of Sequences: 62578
Number of extensions: 831245
Number of successful extensions: 1757
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1754
Number of HSP's gapped (non-prelim): 5
length of query: 899
length of database: 14,973,337
effective HSP length: 108
effective length of query: 791
effective length of database: 8,214,913
effective search space: 6497996183
effective search space used: 6497996183
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)