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= 034834
(82 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2TMK|A Chain A, Yeast Thymidylate Kinase Complexed With 3'-Azido-3'-
Deoxythymidine Monophosphate (Azt-Mp)
pdb|2TMK|B Chain B, Yeast Thymidylate Kinase Complexed With 3'-Azido-3'-
Deoxythymidine Monophosphate (Azt-Mp)
pdb|1TMK|A Chain A, Yeast Thymidylate Kinase Complexed With Thymidine
Monophosphate (Dtmp)
pdb|1TMK|B Chain B, Yeast Thymidylate Kinase Complexed With Thymidine
Monophosphate (Dtmp)
pdb|3TMK|A Chain A, Crystal Structure Of Yeast Thymidylate Kinase Complexed
With The Bisubstrate Inhibitor Tp5a At 2.0 A Resolution:
Implications For Catalysis And Azt Activation
pdb|3TMK|B Chain B, Crystal Structure Of Yeast Thymidylate Kinase Complexed
With The Bisubstrate Inhibitor Tp5a At 2.0 A Resolution:
Implications For Catalysis And Azt Activation
pdb|3TMK|C Chain C, Crystal Structure Of Yeast Thymidylate Kinase Complexed
With The Bisubstrate Inhibitor Tp5a At 2.0 A Resolution:
Implications For Catalysis And Azt Activation
pdb|3TMK|D Chain D, Crystal Structure Of Yeast Thymidylate Kinase Complexed
With The Bisubstrate Inhibitor Tp5a At 2.0 A Resolution:
Implications For Catalysis And Azt Activation
pdb|3TMK|E Chain E, Crystal Structure Of Yeast Thymidylate Kinase Complexed
With The Bisubstrate Inhibitor Tp5a At 2.0 A Resolution:
Implications For Catalysis And Azt Activation
pdb|3TMK|F Chain F, Crystal Structure Of Yeast Thymidylate Kinase Complexed
With The Bisubstrate Inhibitor Tp5a At 2.0 A Resolution:
Implications For Catalysis And Azt Activation
pdb|3TMK|G Chain G, Crystal Structure Of Yeast Thymidylate Kinase Complexed
With The Bisubstrate Inhibitor Tp5a At 2.0 A Resolution:
Implications For Catalysis And Azt Activation
pdb|3TMK|H Chain H, Crystal Structure Of Yeast Thymidylate Kinase Complexed
With The Bisubstrate Inhibitor Tp5a At 2.0 A Resolution:
Implications For Catalysis And Azt Activation
Length = 216
Score = 34.3 bits (77), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 22/31 (70%), Gaps = 3/31 (9%)
Query: 41 AGTTLIVDCYFYSGVVFASAK---GIDVEWC 68
G +++D Y YSGV +++AK G+D++WC
Sbjct: 86 EGKNIVMDRYVYSGVAYSAAKGTNGMDLDWC 116
>pdb|1E98|A Chain A, Wild Type Human Thymidylate Kinase Complexed With Aztmp
And Adp
Length = 215
Score = 33.9 bits (76), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 16/33 (48%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
Query: 38 KRKAGTTLIVDCYFYSGVVFASAK-GIDVEWCK 69
K G TL+VD Y +SGV F AK ++WCK
Sbjct: 89 KLSQGVTLVVDRYAFSGVAFTGAKENFSLDWCK 121
>pdb|2XX3|A Chain A, Human Thymidylate Kinase Complexed With Thymidine Butenyl
Phosphonate Monophosphate And Adp
Length = 232
Score = 33.9 bits (76), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 16/33 (48%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
Query: 38 KRKAGTTLIVDCYFYSGVVFASAK-GIDVEWCK 69
K G TL+VD Y +SGV F AK ++WCK
Sbjct: 106 KLSQGVTLVVDRYAFSGVAFTGAKENFSLDWCK 138
>pdb|1E2D|A Chain A, Human Thymidylate Kinase Complexed With Thymidine
Monophosphate, Adenosine Diphosphate And A Magnesium-Ion
pdb|1E2E|A Chain A, Human Thymidylate Kinase Complexed With Thymidine
Monophosphate, Adenosine Diphosphate,A Magnesium-Ion And
Alf3
pdb|1E2F|A Chain A, Human Thymidylate Kinase Complexed With Thymidine
Monophosphate, Adenosine Diphosphate And A Magnesium-Ion
pdb|1E2G|A Chain A, Human Thymidylate Kinase Complexed With Adp, Tdp And A
Magnesium-Ion
pdb|1E2Q|A Chain A, Human Thymidylate Kinase Complexed With Tp5a And A
Magnesium-Ion
pdb|1E99|A Chain A, Human Thymidylate Kinase Complexed With Aztmp And Adp
pdb|1E9A|A Chain A, Human Thymidylate Kinase Complexed With The Bisubstrate
Inhibitor Aztp5a
pdb|1E9B|A Chain A, Human Thymidylate Kinase Complexed With Aztmp And Appnp
pdb|1NMX|A Chain A, Crystal Structure Of Human Thymidylate Kinase With Fltmp
And Adp
pdb|1NMZ|A Chain A, Crystal Structure Of Human Thymidylate Kinase With Nh2tmp
And Appnhp
pdb|1NN0|A Chain A, Crystal Structure Of Human Thymidylate Kinase With Ddtmp
And Adp
pdb|1NN1|A Chain A, Crystal Structure Of Human Thymidylate Kinase With Ddtmp
And Appnhp
pdb|1NN3|A Chain A, Crystal Structure Of Human Thymidylate Kinase With D4tmp +
Adp
pdb|1NN5|A Chain A, Crystal Structure Of Human Thymidylate Kinase With D4tmp +
Appnhp
Length = 215
Score = 33.9 bits (76), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 16/33 (48%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
Query: 38 KRKAGTTLIVDCYFYSGVVFASAK-GIDVEWCK 69
K G TL+VD Y +SGV F AK ++WCK
Sbjct: 89 KLSQGVTLVVDRYAFSGVAFTGAKENFSLDWCK 121
>pdb|1E9F|A Chain A, Mutant Human Thymidylate Kinase Complexed With Tmp And Adp
Length = 217
Score = 33.9 bits (76), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 16/33 (48%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
Query: 38 KRKAGTTLIVDCYFYSGVVFASAK-GIDVEWCK 69
K G TL+VD Y +SGV F AK ++WCK
Sbjct: 89 KLSQGVTLVVDRYAFSGVAFTGAKENFSLDWCK 121
>pdb|1NMY|A Chain A, Crystal Structure Of Human Thymidylate Kinase With Fltmp
And Appnhp
Length = 209
Score = 33.9 bits (76), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 16/33 (48%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
Query: 38 KRKAGTTLIVDCYFYSGVVFASAK-GIDVEWCK 69
K G TL+VD Y +SGV F AK ++WCK
Sbjct: 83 KLSQGVTLVVDRYAFSGVAFTGAKENFSLDWCK 115
>pdb|2V54|A Chain A, Crystal Structure Of Vaccinia Virus Thymidylate Kinase
Bound To Tdp
pdb|2V54|B Chain B, Crystal Structure Of Vaccinia Virus Thymidylate Kinase
Bound To Tdp
pdb|2W0S|A Chain A, Crystal Structure Of Vaccinia Virus Thymidylate Kinase
Bound To Brivudin-5'-Monophosphate
pdb|2W0S|B Chain B, Crystal Structure Of Vaccinia Virus Thymidylate Kinase
Bound To Brivudin-5'-Monophosphate
Length = 204
Score = 32.7 bits (73), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 22/32 (68%)
Query: 40 KAGTTLIVDCYFYSGVVFASAKGIDVEWCKAH 71
+ G TLIVD Y +SGV +A+AKG + K++
Sbjct: 84 EQGITLIVDRYAFSGVAYAAAKGASMTLSKSY 115
>pdb|1E9C|A Chain A, Mutant Human Thymidylate Kinase Complexed With Tmp And
Appnp
pdb|1E9D|A Chain A, Mutant Human Thymidylate Kinase (F105y) Complexed With
Aztmp And Adp
pdb|1E9E|A Chain A, Mutant Human Thymidylate Kinase (F105y) Complexed With
Dtmp And Adp
Length = 215
Score = 32.3 bits (72), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
Query: 38 KRKAGTTLIVDCYFYSGVVFASAK-GIDVEWCK 69
K G TL+VD Y +SGV + AK ++WCK
Sbjct: 89 KLSQGVTLVVDRYAFSGVAYTGAKENFSLDWCK 121
>pdb|2PLR|A Chain A, Crystal Structure Of Dtmp Kinase (St1543) From Sulfolobus
Tokodaii Strain7
pdb|2PLR|B Chain B, Crystal Structure Of Dtmp Kinase (St1543) From Sulfolobus
Tokodaii Strain7
Length = 213
Score = 28.9 bits (63), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 11/34 (32%), Positives = 20/34 (58%)
Query: 40 KAGTTLIVDCYFYSGVVFASAKGIDVEWCKAHWA 73
K+G +I D Y Y+ S +G+D++W K ++
Sbjct: 84 KSGFIVISDRYIYTAYARDSVRGVDIDWVKKLYS 117
>pdb|2B4W|A Chain A, Hypothetical Protein From Leishmania Major
Length = 315
Score = 25.0 bits (53), Expect = 9.9, Method: Composition-based stats.
Identities = 13/42 (30%), Positives = 21/42 (50%)
Query: 24 IAGRRVMETKWKATKRKAGTTLIVDCYFYSGVVFASAKGIDV 65
I G +++ TK + L+ DC F SG+V S +D+
Sbjct: 238 ITGAKIIGTKSCYPPCEPKVPLLADCVFASGIVXRSDGKVDL 279
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
0.327 0.133 0.438
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,305,477
Number of Sequences: 62578
Number of extensions: 69292
Number of successful extensions: 134
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 125
Number of HSP's gapped (non-prelim): 10
length of query: 82
length of database: 14,973,337
effective HSP length: 51
effective length of query: 31
effective length of database: 11,781,859
effective search space: 365237629
effective search space used: 365237629
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 45 (21.9 bits)