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= psy16563
(259 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1E9F|A Chain A, Mutant Human Thymidylate Kinase Complexed With Tmp And Adp
Length = 217
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 60/211 (28%), Positives = 94/211 (44%), Gaps = 49/211 (23%)
Query: 56 RKYPLIVFEGLDGCGKSHTSQTVAKKLKASL----------KSTPPSSIMS--LREKFDA 103
R+ LIV EG+DG GKS S+ + + L A+ +ST ++S L++K D
Sbjct: 7 RRGALIVLEGVDGAGKSTQSRKLVEALCAAGHRAELLRFPERSTEIGKLLSSYLQKKSDV 66
Query: 104 HDSLLRRAYYSLGNYIAAQDIKQDL-QKQPVVMDRFWHSTSAYGMANE-----LVKNSDL 157
D + +S + IK+ L Q +V+DR+ S A+ A E K D+
Sbjct: 67 EDHSV-HLLFSANRWEQVPLIKEKLSQGVTLVVDRYAFSGVAFTGAKENFSLDWCKQPDV 125
Query: 158 KLPDEDDDIYSWPKDLMKPDLVIYLTVSEAIRLQR------LSRRKNFTLEENELKKNAK 211
LP KPDLV++L + A +R L R +N +E L+
Sbjct: 126 GLP--------------KPDLVLFLQLQLADAAKRGRARGELERYENGAFQERALR---C 168
Query: 212 FRELL--TTIYRNMNNPELVFVDNSEKSVHE 240
F +L+ TT+ N ++V S ++VHE
Sbjct: 169 FHQLMKDTTL-----NWKMVDASKSIEAVHE 194
>pdb|2PBR|A Chain A, Crystal Structure Of Thymidylate Kinase (Aq_969) From
Aquifex Aeolicus Vf5
pdb|2PBR|B Chain B, Crystal Structure Of Thymidylate Kinase (Aq_969) From
Aquifex Aeolicus Vf5
Length = 195
Score = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 44/158 (27%), Positives = 71/158 (44%), Gaps = 31/158 (19%)
Query: 60 LIVFEGLDGCGKSHTSQTVAKKLK-----ASLKSTPPSSIMS-------LREKFDAHDSL 107
LI FEG+DG GK+ ++ + + LK SL P + + L E+ D L
Sbjct: 2 LIAFEGIDGSGKTTQAKKLYEYLKQKGYFVSLYREPGGTKVGEVLREILLTEELDERTEL 61
Query: 108 LRRAYYSLGNYIAAQDIKQDLQKQPVV-MDRFWHSTSAY-----GMANELVKNSDLKLPD 161
L + + + + + I DL++ VV +DRF ST AY G+ E +KN
Sbjct: 62 L--LFEASRSKLIEEKIIPDLKRDKVVILDRFVLSTIAYQGYGKGLDVEFIKN------- 112
Query: 162 EDDDIYSWPKDLMKPDLVIYLTVSEAIRLQRLSRRKNF 199
+ + +KPD+ + L + I L+RL + F
Sbjct: 113 ----LNEFATRGVKPDITLLLDIPVDIALRRLKEKNRF 146
>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 = 43.9 bits (102), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 57/208 (27%), Positives = 89/208 (42%), Gaps = 45/208 (21%)
Query: 56 RKYPLIVFEGLDGCGKSHTSQTVAKKLKASL----------KSTPPSSIMS--LREKFDA 103
R+ LIV EG+D GKS S+ + + L A+ +ST ++S L++K D
Sbjct: 7 RRGALIVLEGVDRAGKSTQSRKLVEALCAAGHRAELLRFPERSTEIGKLLSSYLQKKSDV 66
Query: 104 HDSLLRRAYYSLGNYIAAQDIKQDL-QKQPVVMDRFWHSTSAYGMANE-----LVKNSDL 157
D + +S + IK+ L Q +V+DR+ S AY A E K D+
Sbjct: 67 EDHSV-HLLFSANRWEQVPLIKEKLSQGVTLVVDRYAFSGVAYTGAKENFSLDWCKQPDV 125
Query: 158 KLPDEDDDIYSWPKDLMKPDLVIYLTVSEAIRLQRLSRRKNFTLEENELKKNAKFRELLT 217
LP KPDLV++L ++L ++R F E E N F+E
Sbjct: 126 GLP--------------KPDLVLFLQ----LQLADAAKRGAFGHERYE---NGAFQERAL 164
Query: 218 TIYRNMN-----NPELVFVDNSEKSVHE 240
+ + N ++V S ++VHE
Sbjct: 165 RCFHQLMKDTTLNWKMVDASKSIEAVHE 192
>pdb|3HJN|A Chain A, Crystal Structure Of Thymidylate Kinase In Complex With
Dtdp And Adp From Thermotoga Maritima
pdb|3HJN|B Chain B, Crystal Structure Of Thymidylate Kinase In Complex With
Dtdp And Adp From Thermotoga Maritima
Length = 197
Score = 43.9 bits (102), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 56/200 (28%), Positives = 90/200 (45%), Gaps = 28/200 (14%)
Query: 60 LIVFEGLDGCGKSHTSQTVAKKL-----KASLKSTPPSSIMSLR-EKFDAHDSLLRRAYY 113
I FEG+DG GKS Q +A+ L K LK P + + K + + +A
Sbjct: 2 FITFEGIDGSGKSTQIQLLAQYLEKRGKKVILKREPGGTETGEKIRKILLEEEVTPKAEL 61
Query: 114 SLGNYIAAQ-----DIKQDL-QKQPVVMDRFWHSTSAY-GMANELVKNSDLKLPDEDDDI 166
L ++A++ +IKQ L + V++DR+ S+ AY G L K +L D
Sbjct: 62 FL--FLASRNLLVTEIKQYLSEGYAVLLDRYTDSSVAYQGFGRNLGKEIVEELND----- 114
Query: 167 YSWPKDLMKPDLVIYLTVSEAIRLQRLSRRKNFTLEENELKKNAKFRELLTTIYRNMNNP 226
+ D + PDL Y+ V L+R F E+ E + + RE + R +P
Sbjct: 115 --FATDGLIPDLTFYIDVDVETALKRKGELNRF--EKREFLE--RVREGYLVLAR--EHP 166
Query: 227 ELVFVDNSEKSVHESSNDIV 246
E + V + ++S+ E D+V
Sbjct: 167 ERIVVLDGKRSIEEIHRDVV 186
>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 = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 56/208 (26%), Positives = 89/208 (42%), Gaps = 45/208 (21%)
Query: 56 RKYPLIVFEGLDGCGKSHTSQTVAKKLKASL----------KSTPPSSIMS--LREKFDA 103
R+ LIV EG+D GKS S+ + + L A+ +ST ++S L++K D
Sbjct: 7 RRGALIVLEGVDRAGKSTQSRKLVEALCAAGHRAELLRFPERSTEIGKLLSSYLQKKSDV 66
Query: 104 HDSLLRRAYYSLGNYIAAQDIKQDL-QKQPVVMDRFWHSTSAYGMANE-----LVKNSDL 157
D + +S + IK+ L Q +V+DR+ S A+ A E K D+
Sbjct: 67 EDHSV-HLLFSANRWEQVPLIKEKLSQGVTLVVDRYAFSGVAFTGAKENFSLDWCKQPDV 125
Query: 158 KLPDEDDDIYSWPKDLMKPDLVIYLTVSEAIRLQRLSRRKNFTLEENELKKNAKFRELLT 217
LP KPDLV++L ++L ++R F E E N F+E
Sbjct: 126 GLP--------------KPDLVLFLQ----LQLADAAKRGAFGHERYE---NGAFQERAL 164
Query: 218 TIYRNMN-----NPELVFVDNSEKSVHE 240
+ + N ++V S ++VHE
Sbjct: 165 RCFHQLMKDTTLNWKMVDASKSIEAVHE 192
>pdb|2XX3|A Chain A, Human Thymidylate Kinase Complexed With Thymidine Butenyl
Phosphonate Monophosphate And Adp
Length = 232
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 56/208 (26%), Positives = 89/208 (42%), Gaps = 45/208 (21%)
Query: 56 RKYPLIVFEGLDGCGKSHTSQTVAKKLKASL----------KSTPPSSIMS--LREKFDA 103
R+ LIV EG+D GKS S+ + + L A+ +ST ++S L++K D
Sbjct: 24 RRGALIVLEGVDRAGKSTQSRKLVEALCAAGHRAELLRFPERSTEIGKLLSSYLQKKSDV 83
Query: 104 HDSLLRRAYYSLGNYIAAQDIKQDL-QKQPVVMDRFWHSTSAYGMANE-----LVKNSDL 157
D + +S + IK+ L Q +V+DR+ S A+ A E K D+
Sbjct: 84 EDHSV-HLLFSANRWEQVPLIKEKLSQGVTLVVDRYAFSGVAFTGAKENFSLDWCKQPDV 142
Query: 158 KLPDEDDDIYSWPKDLMKPDLVIYLTVSEAIRLQRLSRRKNFTLEENELKKNAKFRELLT 217
LP KPDLV++L ++L ++R F E E N F+E
Sbjct: 143 GLP--------------KPDLVLFLQ----LQLADAAKRGAFGHERYE---NGAFQERAL 181
Query: 218 TIYRNMN-----NPELVFVDNSEKSVHE 240
+ + N ++V S ++VHE
Sbjct: 182 RCFHQLMKDTTLNWKMVDASKSIEAVHE 209
>pdb|1NMY|A Chain A, Crystal Structure Of Human Thymidylate Kinase With Fltmp
And Appnhp
Length = 209
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 56/208 (26%), Positives = 89/208 (42%), Gaps = 45/208 (21%)
Query: 56 RKYPLIVFEGLDGCGKSHTSQTVAKKLKASL----------KSTPPSSIMS--LREKFDA 103
R+ LIV EG+D GKS S+ + + L A+ +ST ++S L++K D
Sbjct: 1 RRGALIVLEGVDRAGKSTQSRKLVEALCAAGHRAELLRFPERSTEIGKLLSSYLQKKSDV 60
Query: 104 HDSLLRRAYYSLGNYIAAQDIKQDL-QKQPVVMDRFWHSTSAYGMANE-----LVKNSDL 157
D + +S + IK+ L Q +V+DR+ S A+ A E K D+
Sbjct: 61 EDHSV-HLLFSANRWEQVPLIKEKLSQGVTLVVDRYAFSGVAFTGAKENFSLDWCKQPDV 119
Query: 158 KLPDEDDDIYSWPKDLMKPDLVIYLTVSEAIRLQRLSRRKNFTLEENELKKNAKFRELLT 217
LP KPDLV++L ++L ++R F E E N F+E
Sbjct: 120 GLP--------------KPDLVLFLQ----LQLADAAKRGAFGHERYE---NGAFQERAL 158
Query: 218 TIYRNMN-----NPELVFVDNSEKSVHE 240
+ + N ++V S ++VHE
Sbjct: 159 RCFHQLMKDTTLNWKMVDASKSIEAVHE 186
>pdb|1E98|A Chain A, Wild Type Human Thymidylate Kinase Complexed With Aztmp
And Adp
Length = 215
Score = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 59/208 (28%), Positives = 93/208 (44%), Gaps = 45/208 (21%)
Query: 56 RKYPLIVFEGLDGCGKSHTSQTVAKKLKASL----------KSTPPSSIMS--LREKFDA 103
R+ LIV EG+D GKS S+ + + L A+ +ST ++S L++K D
Sbjct: 7 RRGALIVLEGVDRAGKSTQSRKLVEALCAAGHRAELLRFPERSTEIGKLLSSYLQKKSDV 66
Query: 104 HDSLLRRAYYSLGNYIAAQDIKQDL-QKQPVVMDRFWHSTSAYGMANE-----LVKNSDL 157
D + +S + IK+ L Q +V+DR+ S A+ A E K D+
Sbjct: 67 EDHSV-HLLFSANRWEQVPLIKEKLSQGVTLVVDRYAFSGVAFTGAKENFSLDWCKQPDV 125
Query: 158 KLPDEDDDIYSWPKDLMKPDLVIYLTVSEAIRLQRLSRRKNFTLEENELKKNAKFRE-LL 216
LP KPDLV++L ++L ++R F E E N F+E L
Sbjct: 126 GLP--------------KPDLVLFLQ----LQLADAAKRGAFGHERYE---NGAFQERAL 164
Query: 217 TTIYRNMNNPELVF--VDNSEK--SVHE 240
++ M + L + VD S++ +VHE
Sbjct: 165 RCFHQLMKDTTLNWKMVDASKRIEAVHE 192
>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 = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 52/208 (25%), Positives = 87/208 (41%), Gaps = 30/208 (14%)
Query: 60 LIVFEGLDGCGKSHTSQTVAKKLKASLK--STPPSS--IMSLREKFDAHDSL-----LRR 110
LI+ EGLD GK+ + KKL+ + K P S I L ++ DS
Sbjct: 7 LILIEGLDRTGKTTQCNILYKKLQPNCKLLKFPERSTRIGGLINEYLTDDSFQLSDQAIH 66
Query: 111 AYYSLGNYIAAQDIKQD-LQKQPVVMDRFWHSTSAYGMANELVKNSDLKLPDEDDDIYSW 169
+S + IK+D L+ + +VMDR+ +S AY A DL + D
Sbjct: 67 LLFSANRWEIVDKIKKDLLEGKNIVMDRYVYSGVAYSAAKG-TNGMDLDWCLQPD----- 120
Query: 170 PKDLMKPDLVIYLTVSEAIRLQRLSRRKNFTLEENELKKNAKFRELLTTIYRNMNNPE-- 227
L+KPDL ++L+ + + + + F E E KF+E + + + + E
Sbjct: 121 -VGLLKPDLTLFLSTQD---VDNNAEKSGFGDERYE---TVKFQEKVKQTFMKLLDKEIR 173
Query: 228 -----LVFVDNSEKSVHESSNDIVELIH 250
+ VD + K + E I +++
Sbjct: 174 KGDESITIVDVTNKGIQEVEALIWQIVE 201
>pdb|2WWF|A Chain A, Plasmodium Falciparum Thymidylate Kinase In Complex With
Tmp And Adp
pdb|2WWF|B Chain B, Plasmodium Falciparum Thymidylate Kinase In Complex With
Tmp And Adp
pdb|2WWF|C Chain C, Plasmodium Falciparum Thymidylate Kinase In Complex With
Tmp And Adp
pdb|2WWG|A Chain A, Plasmodium Falciparum Thymidylate Kinase In Complex With
Dgmp And Adp
pdb|2WWG|B Chain B, Plasmodium Falciparum Thymidylate Kinase In Complex With
Dgmp And Adp
pdb|2WWG|C Chain C, Plasmodium Falciparum Thymidylate Kinase In Complex With
Dgmp And Adp
pdb|2WWH|A Chain A, Plasmodium Falciparum Thymidylate Kinase In Complex With
Ap5dt
pdb|2WWH|B Chain B, Plasmodium Falciparum Thymidylate Kinase In Complex With
Ap5dt
pdb|2WWH|C Chain C, Plasmodium Falciparum Thymidylate Kinase In Complex With
Ap5dt
pdb|2WWI|A Chain A, Plasmodium Falciparum Thymidylate Kinase In Complex With
Aztmp And Adp
pdb|2WWI|B Chain B, Plasmodium Falciparum Thymidylate Kinase In Complex With
Aztmp And Adp
pdb|2WWI|C Chain C, Plasmodium Falciparum Thymidylate Kinase In Complex With
Aztmp And Adp
Length = 212
Score = 35.8 bits (81), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 41/143 (28%), Positives = 61/143 (42%), Gaps = 21/143 (14%)
Query: 54 DDRKYPLIVFEGLDGCGKSHTSQTVAKKLKAS----------LKSTPPSSIMSLREKFD- 102
D +K IVFEGLD GKS S+ + + LK + + T I+S K +
Sbjct: 6 DKKKGKFIVFEGLDRSGKSTQSKLLVEYLKNNNVEVKHLYFPNRETGIGQIISKYLKMEN 65
Query: 103 AHDSLLRRAYYSLGNYIAAQDIKQDLQKQ-PVVMDRFWHSTSAYGMANELVKNSDLKLPD 161
+ + +S + +IK L K VV DR+ +S AY + + PD
Sbjct: 66 SMSNETIHLLFSANRWEHMNEIKSLLLKGIWVVCDRYAYSGVAYSSGALNLNKTWCMNPD 125
Query: 162 EDDDIYSWPKDLMKPDLVIYLTV 184
+ L+KPD+V YL V
Sbjct: 126 Q---------GLIKPDVVFYLNV 139
>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 = 34.7 bits (78), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 37/135 (27%), Positives = 61/135 (45%), Gaps = 22/135 (16%)
Query: 59 PLIVFEGLDGCGKSHTSQTVAKKLKASL--------KSTPPSSIMS--LREKFDAHDSLL 108
LIVFEGLD GK+ + + + A+ +ST ++ L K +D ++
Sbjct: 5 ALIVFEGLDKSGKTTQCMNIMESIPANTIKYLNFPQRSTVTGKMIDDYLTRKKTYNDHIV 64
Query: 109 RRAYYSLGNYIAAQDIKQDL-QKQPVVMDRFWHSTSAYGMANELVKNSDLKLPDEDDDIY 167
+ + + A I++ L Q +++DR+ S AY A K + + L
Sbjct: 65 NLLFCA-NRWEFASFIQEQLEQGITLIVDRYAFSGVAYAAA----KGASMTLSK------ 113
Query: 168 SWPKDLMKPDLVIYL 182
S+ L KPDLVI+L
Sbjct: 114 SYESGLPKPDLVIFL 128
>pdb|3LD9|A Chain A, Crystal Structure Of Thymidylate Kinase From Ehrlichia
Chaffeensis At 2.15a Resolution
pdb|3LD9|B Chain B, Crystal Structure Of Thymidylate Kinase From Ehrlichia
Chaffeensis At 2.15a Resolution
pdb|3LD9|C Chain C, Crystal Structure Of Thymidylate Kinase From Ehrlichia
Chaffeensis At 2.15a Resolution
pdb|3LD9|D Chain D, Crystal Structure Of Thymidylate Kinase From Ehrlichia
Chaffeensis At 2.15a Resolution
Length = 223
Score = 34.3 bits (77), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 33/107 (30%), Positives = 47/107 (43%), Gaps = 28/107 (26%)
Query: 60 LIVFEGLDGCGKSHTSQTVAKKL-------KASLKSTPPSSIM-----SLREKFDAHDSL 107
I FEG+DG GK+ S +A+ L L P +++ +L K DSL
Sbjct: 23 FITFEGIDGSGKTTQSHLLAEYLSEIYGVNNVVLTREPGGTLLNESVRNLLFKAQGLDSL 82
Query: 108 --------LRRAYYSLGNYIAAQDIKQDL-QKQPVVMDRFWHSTSAY 145
+RR ++ + IK L QK+ V+ DRF ST AY
Sbjct: 83 SELLFFIAMRREHF-------VKIIKPSLMQKKIVICDRFIDSTIAY 122
>pdb|2HWX|A Chain A, Structure Of Human Smg6 E1282c Pin Domain Mutant
Length = 181
Score = 33.9 bits (76), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 24/68 (35%), Positives = 32/68 (47%), Gaps = 5/68 (7%)
Query: 54 DDRKY----PLIVFEGLDGCGKSHTSQTVAKKLKASLKSTPPSSIMSLREKFDAHDSLLR 109
+ RKY PLIV LDG K + A ++ SI L ++F++ DS L
Sbjct: 29 ESRKYILVVPLIVINCLDGLAKGQETDHRAGGYARVVQEKARKSIEFLEQRFESRDSCL- 87
Query: 110 RAYYSLGN 117
RA S GN
Sbjct: 88 RALTSRGN 95
>pdb|2HWW|A Chain A, Structure Of Pin Domain Of Human Smg6
pdb|2HWW|B Chain B, Structure Of Pin Domain Of Human Smg6
pdb|2HWW|C Chain C, Structure Of Pin Domain Of Human Smg6
Length = 181
Score = 33.5 bits (75), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 24/68 (35%), Positives = 32/68 (47%), Gaps = 5/68 (7%)
Query: 54 DDRKY----PLIVFEGLDGCGKSHTSQTVAKKLKASLKSTPPSSIMSLREKFDAHDSLLR 109
+ RKY PLIV LDG K + A ++ SI L ++F++ DS L
Sbjct: 29 ESRKYILVVPLIVINELDGLAKGQETDHRAGGYARVVQEKARKSIEFLEQRFESRDSCL- 87
Query: 110 RAYYSLGN 117
RA S GN
Sbjct: 88 RALTSRGN 95
>pdb|2DOK|A Chain A, Crystal Structure Of The Pin Domain Of Human Est1a
pdb|2DOK|B Chain B, Crystal Structure Of The Pin Domain Of Human Est1a
Length = 186
Score = 33.1 bits (74), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 24/68 (35%), Positives = 32/68 (47%), Gaps = 5/68 (7%)
Query: 54 DDRKY----PLIVFEGLDGCGKSHTSQTVAKKLKASLKSTPPSSIMSLREKFDAHDSLLR 109
+ RKY PLIV LDG K + A ++ SI L ++F++ DS L
Sbjct: 34 ESRKYILVVPLIVINELDGLAKGQETDHRAGGYARVVQEKARKSIEFLEQRFESRDSCL- 92
Query: 110 RAYYSLGN 117
RA S GN
Sbjct: 93 RALTSRGN 100
>pdb|2JAS|A Chain A, Structure Of Deoxyadenosine Kinase From M.Mycoides With
Bound Datp
pdb|2JAS|B Chain B, Structure Of Deoxyadenosine Kinase From M.Mycoides With
Bound Datp
pdb|2JAS|C Chain C, Structure Of Deoxyadenosine Kinase From M.Mycoides With
Bound Datp
pdb|2JAS|D Chain D, Structure Of Deoxyadenosine Kinase From M.Mycoides With
Bound Datp
pdb|2JAS|E Chain E, Structure Of Deoxyadenosine Kinase From M.Mycoides With
Bound Datp
pdb|2JAS|F Chain F, Structure Of Deoxyadenosine Kinase From M.Mycoides With
Bound Datp
Length = 206
Score = 33.1 bits (74), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 60/147 (40%), Gaps = 15/147 (10%)
Query: 61 IVFEGLDGCGKSHTSQTVAKKLKASLKSTPPSSIMSLREKFDAHDSLLRRAYYSLGNYIA 120
I G G GKS S ++KKL + P F+ + L++ + + Y+
Sbjct: 4 IAIFGTVGAGKSTISAEISKKLGYEIFKEPVEE----NPYFEQYYKDLKKTVFKMQIYML 59
Query: 121 ---AQDIKQDLQKQPVVMDRFWHSTSAYGMANELVKNSDLKLPDEDDDIYS--------W 169
++ +KQ + ++ DR + N + N D + D Y+
Sbjct: 60 TARSKQLKQAKNLENIIFDRTLLEDPIFMKVNYDLNNVDQTDYNTYIDFYNNVVLENLKI 119
Query: 170 PKDLMKPDLVIYLTVSEAIRLQRLSRR 196
P++ + D+VIYL VS + R+ +R
Sbjct: 120 PENKLSFDIVIYLRVSTKTAISRIKKR 146
>pdb|2JAQ|A Chain A, Structure Of Deoxyadenosine Kinase From M. Mycoides With
Bound Dctp
pdb|2JAQ|B Chain B, Structure Of Deoxyadenosine Kinase From M. Mycoides With
Bound Dctp
pdb|2JAT|A Chain A, Structure Of Deoxyadenosine Kinase From M.Mycoides With
Products Dcmp And A Flexible Dcdp Bound
pdb|2JAT|B Chain B, Structure Of Deoxyadenosine Kinase From M.Mycoides With
Products Dcmp And A Flexible Dcdp Bound
Length = 205
Score = 33.1 bits (74), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 60/147 (40%), Gaps = 15/147 (10%)
Query: 61 IVFEGLDGCGKSHTSQTVAKKLKASLKSTPPSSIMSLREKFDAHDSLLRRAYYSLGNYIA 120
I G G GKS S ++KKL + P F+ + L++ + + Y+
Sbjct: 3 IAIFGTVGAGKSTISAEISKKLGYEIFKEPVEE----NPYFEQYYKDLKKTVFKMQIYML 58
Query: 121 ---AQDIKQDLQKQPVVMDRFWHSTSAYGMANELVKNSDLKLPDEDDDIYS--------W 169
++ +KQ + ++ DR + N + N D + D Y+
Sbjct: 59 TARSKQLKQAKNLENIIFDRTLLEDPIFMKVNYDLNNVDQTDYNTYIDFYNNVVLENLKI 118
Query: 170 PKDLMKPDLVIYLTVSEAIRLQRLSRR 196
P++ + D+VIYL VS + R+ +R
Sbjct: 119 PENKLSFDIVIYLRVSTKTAISRIKKR 145
>pdb|3LV8|A Chain A, 1.8 Angstrom Resolution Crystal Structure Of A Thymidylate
Kinase (Tmk) From Vibrio Cholerae O1 Biovar Eltor Str.
N16961 In Complex With Tmp, Thymidine-5'-Diphosphate And
Adp
pdb|3N2I|A Chain A, 2.25 Angstrom Resolution Crystal Structure Of A
Thymidylate Kinase (tmk) From Vibrio Cholerae O1 Biovar
Eltor Str. N16961 In Complex With Thymidine
pdb|3N2I|B Chain B, 2.25 Angstrom Resolution Crystal Structure Of A
Thymidylate Kinase (tmk) From Vibrio Cholerae O1 Biovar
Eltor Str. N16961 In Complex With Thymidine
Length = 236
Score = 31.2 bits (69), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 53/212 (25%), Positives = 81/212 (38%), Gaps = 44/212 (20%)
Query: 60 LIVFEGLDGCGKSHTSQTV-----------------------AKKLKASLKSTPPSSIMS 96
IV EGL+G GKS Q V A+KL+A +K P
Sbjct: 29 FIVIEGLEGAGKSTAIQVVVETLQQNGIDHITRTREPGGTLLAEKLRALVKEEHPGE--- 85
Query: 97 LREKFDAHDSLLRRAYYSLGNYIAAQDIKQDLQK-QPVVMDRFWHSTSAYGMANELVKNS 155
E D + LL Y+ + IK L + + VV DR S+ AY + S
Sbjct: 86 --ELQDITELLL---VYAARVQLVENVIKPALARGEWVVGDRHDMSSQAYQGGGRQIAPS 140
Query: 156 DLKLPDEDDDIYSWPKDLMKPDLVIYLTVSEAIRLQRLSRRKNFTLEENELKKNAKFREL 215
++ + KPDL +YL + + L+R R E K + F E
Sbjct: 141 TMQ------SLKQTALGDFKPDLTLYLDIDPKLGLERARGRGELDRIE---KMDISFFER 191
Query: 216 LTTIYRNMNNPE--LVFVDNSEKSVHESSNDI 245
Y + N + +V +D ++ S+ + + DI
Sbjct: 192 ARERYLELANSDDSVVMIDAAQ-SIEQVTADI 222
>pdb|3V9P|A Chain A, Crystal Structure Of Thymidylate Kinase From Burkholderia
Thailandensis
pdb|3V9P|B Chain B, Crystal Structure Of Thymidylate Kinase From Burkholderia
Thailandensis
Length = 227
Score = 30.8 bits (68), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 39/163 (23%), Positives = 59/163 (36%), Gaps = 35/163 (21%)
Query: 48 QDSGVGDDRKYPLIVFEGLDGCGKSHTSQTVAKKLKASLKSTPPSSIMS----------- 96
Q G G + I FEG+DG GK+ Q +L+ L +++
Sbjct: 15 QTQGPGSMARGKFITFEGIDGAGKTTHLQWFCDRLQERLGPAGRHVVVTREPGGTRLGET 74
Query: 97 -----LREKFDAHDSLL-----RRAYYSLGNYIAAQDIKQDLQKQPVVMDRFWHSTSAYG 146
L + D L RR + +L I + D VV DRF +T AY
Sbjct: 75 LREILLNQPMDLETEALLMFAGRREHLAL--VIEPALARGDW----VVSDRFTDATFAY- 127
Query: 147 MANELVKNSDLKLP-DEDDDIYSWPKDLMKPDLVIYLTVSEAI 188
+ LP D+ + + W + +PDL + V I
Sbjct: 128 ------QGGGRGLPRDKLEALERWVQGGFQPDLTVLFDVPPQI 164
>pdb|2VLI|A Chain A, Structure Of Deinococcus Radiodurans Tunicamycin
Resistance Protein
pdb|2VLI|B Chain B, Structure Of Deinococcus Radiodurans Tunicamycin
Resistance Protein
Length = 183
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 23/43 (53%)
Query: 57 KYPLIVFEGLDGCGKSHTSQTVAKKLKASLKSTPPSSIMSLRE 99
+ P+I G G GK+HT+ T+ ++L S P +LR+
Sbjct: 4 RSPIIWINGPFGVGKTHTAHTLHERLPGSFVFEPEEXGQALRK 46
>pdb|1W4S|A Chain A, Crystal Structure Of The Proximal Bah Domain Of Polybromo
Length = 174
Score = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 9/42 (21%), Positives = 22/42 (52%)
Query: 103 AHDSLLRRAYYSLGNYIAAQDIKQDLQKQPVVMDRFWHSTSA 144
+ D + + Y +G+Y+ + + +LQ V ++R W ++
Sbjct: 17 SQDCSFKNSMYHVGDYVYVEPAEANLQPHIVCIERLWEDSAG 58
>pdb|1TON|A Chain A, Rat Submaxillary Gland Serine Protease, Tonin. Structure
Solution And Refinement At 1.8 Angstroms Resolution
Length = 235
Score = 27.7 bits (60), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 31/52 (59%), Gaps = 3/52 (5%)
Query: 201 LEENELKKNAKF--RELLTTIYRNMNNPELVFVDNSEKSVHESSNDIVELIH 250
L N L K+ F R L+ +R+ + L+ +++E+ VH+ SND++ L+H
Sbjct: 49 LGRNNLFKDEPFAQRRLVRQSFRHPDYIPLIVTNDTEQPVHDHSNDLM-LLH 99
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
0.314 0.131 0.365
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,263,305
Number of Sequences: 62578
Number of extensions: 285420
Number of successful extensions: 650
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 635
Number of HSP's gapped (non-prelim): 24
length of query: 259
length of database: 14,973,337
effective HSP length: 97
effective length of query: 162
effective length of database: 8,903,271
effective search space: 1442329902
effective search space used: 1442329902
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 50 (23.9 bits)