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= psy4598
(369 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3ZVL|A Chain A, The Structural Basis For Substrate Recognition By
Mammalian Polynucleotide Kinase 3' Phosphatase
Length = 416
Score = 235 bits (600), Expect = 3e-62, Method: Compositional matrix adjust.
Identities = 136/364 (37%), Positives = 181/364 (49%), Gaps = 63/364 (17%)
Query: 12 KLLVFTSNDVCNSAKIASFDLDGTLITTKSGKVFPVDTHDWKLLFSNIESVLKQYLDDGY 71
KLLVFT++ V K+A+FDLDGTLITT+SGKVFP DW++L+ I L++ +GY
Sbjct: 45 KLLVFTASGVKPQGKVAAFDLDGTLITTRSGKVFPTSPSDWRILYPEIPKKLQELAAEGY 104
Query: 72 KLVIFTNQGAIGRKKMSTRDFQAKAEKIIKSLNVPVQMFVATQYDRYRKPVPGMWEYLSQ 131
KLVIFTNQ IGR K+ F+ K E +++ L VP Q+ VAT RKPV GMW++L +
Sbjct: 105 KLVIFTNQMGIGRGKLPAEVFKGKVEAVLEKLGVPFQVLVATHAGLNRKPVSGMWDHLQE 164
Query: 132 EKNGDLAIDISQSFYXXXXXXXXXXXXP-KKKKDFACTDHXXXXXXXXXXXTPEQIFLNE 190
+ N + I + S + P +KKKDF+C D TPE+ FL
Sbjct: 165 QANEGIPISVEDSVFVGDAAGRLANWAPGRKKKDFSCADRLFALNVGLPFATPEEFFLKW 224
Query: 191 KAPDFPNLPTFKPREV-------YQKAQSQTIPNIPHDKKQVLIMIGSQGSGKSSFVSTY 243
A F LP F PR + ++ S PN +V++ +G G+GKS+F+ +
Sbjct: 225 PAARF-ELPAFDPRTISSAGPLYLPESSSLLSPN-----PEVVVAVGFPGAGKSTFIQEH 278
Query: 244 LKPLNYTTVNRDTLGSWQKCVSVMKAALDSVLIMIGSQGSGKSSFVSTYLKPLNYTTVNR 303
L Y VNRDTLGSWQ+CVS +AA
Sbjct: 279 LVSAGYVHVNRDTLGSWQRCVSSCQAA--------------------------------- 305
Query: 304 DTLGSWQKCVSVMKAALDSGLSVVVDNTNPDKESRHRYIEAAKQHGVRCIAVHMNISKEH 363
L G VV+DNTNPD SR RYI+ AK GV C + + E
Sbjct: 306 ----------------LRQGKRVVIDNTNPDVPSRARYIQCAKDAGVPCRCFNFXATIEQ 349
Query: 364 AKHN 367
A+HN
Sbjct: 350 ARHN 353
>pdb|3ZVM|A Chain A, The Structural Basis For Substrate Recognition By
Mammalian Polynucleotide Kinase 3' Phosphatase
pdb|3ZVM|B Chain B, The Structural Basis For Substrate Recognition By
Mammalian Polynucleotide Kinase 3' Phosphatase
Length = 416
Score = 235 bits (599), Expect = 4e-62, Method: Compositional matrix adjust.
Identities = 136/364 (37%), Positives = 181/364 (49%), Gaps = 63/364 (17%)
Query: 12 KLLVFTSNDVCNSAKIASFDLDGTLITTKSGKVFPVDTHDWKLLFSNIESVLKQYLDDGY 71
KLLVFT++ V K+A+FDLDGTLITT+SGKVFP DW++L+ I L++ +GY
Sbjct: 45 KLLVFTASGVKPQGKVAAFDLDGTLITTRSGKVFPTSPSDWRILYPEIPKKLQELAAEGY 104
Query: 72 KLVIFTNQGAIGRKKMSTRDFQAKAEKIIKSLNVPVQMFVATQYDRYRKPVPGMWEYLSQ 131
KLVIFTNQ IGR K+ F+ K E +++ L VP Q+ VAT RKPV GMW++L +
Sbjct: 105 KLVIFTNQMGIGRGKLPAEVFKGKVEAVLEKLGVPFQVLVATHAGLNRKPVSGMWDHLQE 164
Query: 132 EKNGDLAIDISQSFYXXXXXXXXXXXXP-KKKKDFACTDHXXXXXXXXXXXTPEQIFLNE 190
+ N + I + S + P +KKKDF+C D TPE+ FL
Sbjct: 165 QANEGIPISVEDSVFVGDAAGRLANWAPGRKKKDFSCADRLFALNVGLPFATPEEFFLKW 224
Query: 191 KAPDFPNLPTFKPREV-------YQKAQSQTIPNIPHDKKQVLIMIGSQGSGKSSFVSTY 243
A F LP F PR + ++ S PN +V++ +G G+GKS+F+ +
Sbjct: 225 PAARF-ELPAFDPRTISSAGPLYLPESSSLLSPN-----PEVVVAVGFPGAGKSTFIQEH 278
Query: 244 LKPLNYTTVNRDTLGSWQKCVSVMKAALDSVLIMIGSQGSGKSSFVSTYLKPLNYTTVNR 303
L Y VNRDTLGSWQ+CVS +AA
Sbjct: 279 LVSAGYVHVNRDTLGSWQRCVSSCQAA--------------------------------- 305
Query: 304 DTLGSWQKCVSVMKAALDSGLSVVVDNTNPDKESRHRYIEAAKQHGVRCIAVHMNISKEH 363
L G VV+DNTNPD SR RYI+ AK GV C + + E
Sbjct: 306 ----------------LRQGKRVVIDNTNPDVPSRARYIQCAKDAGVPCRCFNFCATIEQ 349
Query: 364 AKHN 367
A+HN
Sbjct: 350 ARHN 353
>pdb|3ZVN|A Chain A, The Structural Basis For Substrate Recognition By
Mammalian Polynucleotide Kinase 3' Phosphatase
Length = 416
Score = 233 bits (595), Expect = 9e-62, Method: Compositional matrix adjust.
Identities = 135/364 (37%), Positives = 181/364 (49%), Gaps = 63/364 (17%)
Query: 12 KLLVFTSNDVCNSAKIASFDLDGTLITTKSGKVFPVDTHDWKLLFSNIESVLKQYLDDGY 71
KLLVFT++ V K+A+F+LDGTLITT+SGKVFP DW++L+ I L++ +GY
Sbjct: 45 KLLVFTASGVKPQGKVAAFNLDGTLITTRSGKVFPTSPSDWRILYPEIPKKLQELAAEGY 104
Query: 72 KLVIFTNQGAIGRKKMSTRDFQAKAEKIIKSLNVPVQMFVATQYDRYRKPVPGMWEYLSQ 131
KLVIFTNQ IGR K+ F+ K E +++ L VP Q+ VAT RKPV GMW++L +
Sbjct: 105 KLVIFTNQMGIGRGKLPAEVFKGKVEAVLEKLGVPFQVLVATHAGLNRKPVSGMWDHLQE 164
Query: 132 EKNGDLAIDISQSFYXXXXXXXXXXXXP-KKKKDFACTDHXXXXXXXXXXXTPEQIFLNE 190
+ N + I + S + P +KKKDF+C D TPE+ FL
Sbjct: 165 QANEGIPISVEDSVFVGDAAGRLANWAPGRKKKDFSCADRLFALNVGLPFATPEEFFLKW 224
Query: 191 KAPDFPNLPTFKPREV-------YQKAQSQTIPNIPHDKKQVLIMIGSQGSGKSSFVSTY 243
A F LP F PR + ++ S PN +V++ +G G+GKS+F+ +
Sbjct: 225 PAARF-ELPAFDPRTISSAGPLYLPESSSLLSPN-----PEVVVAVGFPGAGKSTFIQEH 278
Query: 244 LKPLNYTTVNRDTLGSWQKCVSVMKAALDSVLIMIGSQGSGKSSFVSTYLKPLNYTTVNR 303
L Y VNRDTLGSWQ+CVS +AA
Sbjct: 279 LVSAGYVHVNRDTLGSWQRCVSSCQAA--------------------------------- 305
Query: 304 DTLGSWQKCVSVMKAALDSGLSVVVDNTNPDKESRHRYIEAAKQHGVRCIAVHMNISKEH 363
L G VV+DNTNPD SR RYI+ AK GV C + + E
Sbjct: 306 ----------------LRQGKRVVIDNTNPDVPSRARYIQCAKDAGVPCRCFNFXATIEQ 349
Query: 364 AKHN 367
A+HN
Sbjct: 350 ARHN 353
>pdb|1YJ5|A Chain A, Molecular Architecture Of Mammalian Polynucleotide Kinase,
A Dna Repair Enzyme
pdb|1YJ5|B Chain B, Molecular Architecture Of Mammalian Polynucleotide Kinase,
A Dna Repair Enzyme
Length = 383
Score = 233 bits (593), Expect = 2e-61, Method: Compositional matrix adjust.
Identities = 134/360 (37%), Positives = 180/360 (50%), Gaps = 55/360 (15%)
Query: 12 KLLVFTSNDVCNSAKIASFDLDGTLITTKSGKVFPVDTHDWKLLFSNIESVLKQYLDDGY 71
KLLVFT++ V K+A+FDLDGTLITT+SGKVFP DW++L+ I L++ +GY
Sbjct: 12 KLLVFTASGVKPQGKVAAFDLDGTLITTRSGKVFPTSPSDWRILYPEIPKKLQELAAEGY 71
Query: 72 KLVIFTNQGAIGRKKMSTRDFQAKAEKIIKSLNVPVQMFVATQYDRYRKPVPGMWEYLSQ 131
KLVIFTNQ IGR K+ F+ K E +++ L VP Q+ VAT RKPV G W++L +
Sbjct: 72 KLVIFTNQXGIGRGKLPAEVFKGKVEAVLEKLGVPFQVLVATHAGLNRKPVSGXWDHLQE 131
Query: 132 EKNGDLAIDISQSFYXXXXXXXXXXXXP-KKKKDFACTDHXXXXXXXXXXXTPEQIFLNE 190
+ N + I + S + P +KKKDF+C D TPE+ FL
Sbjct: 132 QANEGIPISVEDSVFVGDAAGRLANWAPGRKKKDFSCADRLFALNVGLPFATPEEFFLKW 191
Query: 191 KAPDFPNLPTFKPREVYQKAQSQTIP---NIPHDKKQVLIMIGSQGSGKSSFVSTYLKPL 247
A F LP F PR + A +P ++ +V++ +G G+GKS+F+ +L
Sbjct: 192 PAARF-ELPAFDPRTI-SSAGPLYLPESSSLLSPNPEVVVAVGFPGAGKSTFIQEHLVSA 249
Query: 248 NYTTVNRDTLGSWQKCVSVMKAALDSVLIMIGSQGSGKSSFVSTYLKPLNYTTVNRDTLG 307
Y VNRDTLGSWQ+CVS +AA
Sbjct: 250 GYVHVNRDTLGSWQRCVSSCQAA------------------------------------- 272
Query: 308 SWQKCVSVMKAALDSGLSVVVDNTNPDKESRHRYIEAAKQHGVRCIAVHMNISKEHAKHN 367
L G VV+DNTNPD SR RYI+ AK GV C + + E A+HN
Sbjct: 273 ------------LRQGKRVVIDNTNPDVPSRARYIQCAKDAGVPCRCFNFCATIEQARHN 320
>pdb|3U7E|B Chain B, Crystal Structure Of Mpnkp Catalytic Fragment (D170a)
pdb|3U7F|B Chain B, Crystal Structure Of Mpnkp Catalytic Fragment (D170a)
Bound To Single- Stranded Dna (Tcctcp)
pdb|3U7H|B Chain B, Crystal Structure Of Mpnkp Catalytic Fragment (D170a)
Bound To Single- Stranded Dna (Tccttp)
Length = 381
Score = 230 bits (587), Expect = 7e-61, Method: Compositional matrix adjust.
Identities = 133/360 (36%), Positives = 179/360 (49%), Gaps = 55/360 (15%)
Query: 12 KLLVFTSNDVCNSAKIASFDLDGTLITTKSGKVFPVDTHDWKLLFSNIESVLKQYLDDGY 71
KLLVFT++ V K+A+F LDGTLITT+SGKVFP DW++L+ I L++ +GY
Sbjct: 10 KLLVFTASGVKPQGKVAAFALDGTLITTRSGKVFPTSPSDWRILYPEIPKKLQELAAEGY 69
Query: 72 KLVIFTNQGAIGRKKMSTRDFQAKAEKIIKSLNVPVQMFVATQYDRYRKPVPGMWEYLSQ 131
KLVIFTNQ IGR K+ F+ K E +++ L VP Q+ VAT RKPV G W++L +
Sbjct: 70 KLVIFTNQXGIGRGKLPAEVFKGKVEAVLEKLGVPFQVLVATHAGLNRKPVSGXWDHLQE 129
Query: 132 EKNGDLAIDISQSFYXXXXXXXXXXXXP-KKKKDFACTDHXXXXXXXXXXXTPEQIFLNE 190
+ N + I + S + P +KKKDF+C D TPE+ FL
Sbjct: 130 QANEGIPISVEDSVFVGDAAGRLANWAPGRKKKDFSCADRLFALNVGLPFATPEEFFLKW 189
Query: 191 KAPDFPNLPTFKPREVYQKAQSQTIP---NIPHDKKQVLIMIGSQGSGKSSFVSTYLKPL 247
A F LP F PR + A +P ++ +V++ +G G+GKS+F+ +L
Sbjct: 190 PAARF-ELPAFDPRTI-SSAGPLYLPESSSLLSPNPEVVVAVGFPGAGKSTFIQEHLVSA 247
Query: 248 NYTTVNRDTLGSWQKCVSVMKAALDSVLIMIGSQGSGKSSFVSTYLKPLNYTTVNRDTLG 307
Y VNRDTLGSWQ+CVS +AA
Sbjct: 248 GYVHVNRDTLGSWQRCVSSCQAA------------------------------------- 270
Query: 308 SWQKCVSVMKAALDSGLSVVVDNTNPDKESRHRYIEAAKQHGVRCIAVHMNISKEHAKHN 367
L G VV+DNTNPD SR RYI+ AK GV C + + E A+HN
Sbjct: 271 ------------LRQGKRVVIDNTNPDVPSRARYIQCAKDAGVPCRCFNFXATIEQARHN 318
>pdb|3U7G|A Chain A, Crystal Structure Of Mpnkp Catalytic Fragment (D170a)
Bound To Single- Stranded Dna (Tcctap)
Length = 379
Score = 230 bits (586), Expect = 1e-60, Method: Compositional matrix adjust.
Identities = 133/360 (36%), Positives = 179/360 (49%), Gaps = 55/360 (15%)
Query: 12 KLLVFTSNDVCNSAKIASFDLDGTLITTKSGKVFPVDTHDWKLLFSNIESVLKQYLDDGY 71
KLLVFT++ V K+A+F LDGTLITT+SGKVFP DW++L+ I L++ +GY
Sbjct: 8 KLLVFTASGVKPQGKVAAFALDGTLITTRSGKVFPTSPSDWRILYPEIPKKLQELAAEGY 67
Query: 72 KLVIFTNQGAIGRKKMSTRDFQAKAEKIIKSLNVPVQMFVATQYDRYRKPVPGMWEYLSQ 131
KLVIFTNQ IGR K+ F+ K E +++ L VP Q+ VAT RKPV G W++L +
Sbjct: 68 KLVIFTNQXGIGRGKLPAEVFKGKVEAVLEKLGVPFQVLVATHAGLNRKPVSGXWDHLQE 127
Query: 132 EKNGDLAIDISQSFYXXXXXXXXXXXXP-KKKKDFACTDHXXXXXXXXXXXTPEQIFLNE 190
+ N + I + S + P +KKKDF+C D TPE+ FL
Sbjct: 128 QANEGIPISVEDSVFVGDAAGRLANWAPGRKKKDFSCADRLFALNVGLPFATPEEFFLKW 187
Query: 191 KAPDFPNLPTFKPREVYQKAQSQTIP---NIPHDKKQVLIMIGSQGSGKSSFVSTYLKPL 247
A F LP F PR + A +P ++ +V++ +G G+GKS+F+ +L
Sbjct: 188 PAARF-ELPAFDPRTI-SSAGPLYLPESSSLLSPNPEVVVAVGFPGAGKSTFIQEHLVSA 245
Query: 248 NYTTVNRDTLGSWQKCVSVMKAALDSVLIMIGSQGSGKSSFVSTYLKPLNYTTVNRDTLG 307
Y VNRDTLGSWQ+CVS +AA
Sbjct: 246 GYVHVNRDTLGSWQRCVSSCQAA------------------------------------- 268
Query: 308 SWQKCVSVMKAALDSGLSVVVDNTNPDKESRHRYIEAAKQHGVRCIAVHMNISKEHAKHN 367
L G VV+DNTNPD SR RYI+ AK GV C + + E A+HN
Sbjct: 269 ------------LRQGKRVVIDNTNPDVPSRARYIQCAKDAGVPCRCFNFCATIEQARHN 316
>pdb|4GP6|A Chain A, Polynucleotide Kinase
pdb|4GP6|B Chain B, Polynucleotide Kinase
Length = 171
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 31/100 (31%), Positives = 47/100 (47%), Gaps = 13/100 (13%)
Query: 273 SVLIMIGSQGSGKSSFVSTYLKPLNYTTVN--RDTLGSWQKCVSVMKAALDS-------- 322
S++++IGS GSGKS+F + KP + + R + + +V AA D
Sbjct: 10 SLVVLIGSSGSGKSTFAKKHFKPTEVISSDFCRGLVSDDENDQTVTGAAFDVLHYIVSKR 69
Query: 323 ---GLSVVVDNTNPDKESRHRYIEAAKQHGVRCIAVHMNI 359
G VVD TN + +R IE AK + +AV N+
Sbjct: 70 LQLGKLTVVDATNVQESARKPLIEIAKDYHCFPVAVVFNL 109
>pdb|4GP7|A Chain A, Polynucleotide Kinase
pdb|4GP7|B Chain B, Polynucleotide Kinase
Length = 171
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 31/100 (31%), Positives = 46/100 (46%), Gaps = 13/100 (13%)
Query: 273 SVLIMIGSQGSGKSSFVSTYLKPLNYTTVN--RDTLGSWQKCVSVMKAALDS-------- 322
S++++IGS GSGKS+F + KP + + R + +V AA D
Sbjct: 10 SLVVLIGSSGSGKSTFAKKHFKPTEVISSDFCRGLXSDDENDQTVTGAAFDVLHYIVSKR 69
Query: 323 ---GLSVVVDNTNPDKESRHRYIEAAKQHGVRCIAVHMNI 359
G VVD TN + +R IE AK + +AV N+
Sbjct: 70 LQLGKLTVVDATNVQESARKPLIEXAKDYHCFPVAVVFNL 109
>pdb|2FPR|A Chain A, Crystal Structure The N-terminal Domain Of E. Coli Hisb.
Apo Mg Model.
pdb|2FPR|B Chain B, Crystal Structure The N-terminal Domain Of E. Coli Hisb.
Apo Mg Model.
pdb|2FPS|A Chain A, Crystal Structure Of The N-Terminal Domain Of E.Coli
Hisb- Apo Ca Model.
pdb|2FPS|B Chain B, Crystal Structure Of The N-Terminal Domain Of E.Coli
Hisb- Apo Ca Model.
pdb|2FPU|A Chain A, Crystal Structure Of The N-Terminal Domain Of E.Coli
Hisb- Complex With Histidinol
pdb|2FPU|B Chain B, Crystal Structure Of The N-Terminal Domain Of E.Coli
Hisb- Complex With Histidinol
pdb|2FPX|A Chain A, Crystal Structure Of The N-terminal Domain Of E.coli
Hisb- Sulfate Complex.
pdb|2FPX|B Chain B, Crystal Structure Of The N-terminal Domain Of E.coli
Hisb- Sulfate Complex
Length = 176
Score = 33.9 bits (76), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 27/65 (41%), Positives = 32/65 (49%), Gaps = 7/65 (10%)
Query: 31 DLDGTLITTKSGKVFPVDTHDWKLLFSNIESVLKQYLD---DGYKLVIFTNQGAIGRKKM 87
D DGTLI+ F VD D KL F V+ Q L GYKLV+ TNQ +G +
Sbjct: 20 DRDGTLISEPPSD-FQVDRFD-KLAFE--PGVIPQLLKLQKAGYKLVMITNQDGLGTQSF 75
Query: 88 STRDF 92
DF
Sbjct: 76 PQADF 80
>pdb|4ECN|A Chain A, Crystal Structure Of A Leucine-Rich Repeat Protein
(Bt_0210) From Bacteroides Thetaiotaomicron Vpi-5482 At
2.80 A Resolution
Length = 876
Score = 33.1 bits (74), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 35/66 (53%), Gaps = 7/66 (10%)
Query: 71 YKLVIFT--NQGAIGRKKMSTRDFQAKA-----EKIIKSLNVPVQMFVATQYDRYRKPVP 123
Y++V +T +Q I R ++ T+ + ++ K+ K NVP+Q+ +Y + K +
Sbjct: 216 YQVVAYTTYSQSGIKRSELETQSVRGESFTVIDNKLTKDANVPIQLKETAEYIKDYKALK 275
Query: 124 GMWEYL 129
+WE L
Sbjct: 276 AIWEAL 281
>pdb|2FPW|A Chain A, Crystal Structure Of The N-Terminal Domain Of E.Coli
Hisb- Phosphoaspartate Intermediate.
pdb|2FPW|B Chain B, Crystal Structure Of The N-Terminal Domain Of E.Coli
Hisb- Phosphoaspartate Intermediate
Length = 176
Score = 32.7 bits (73), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 26/63 (41%), Positives = 31/63 (49%), Gaps = 7/63 (11%)
Query: 33 DGTLITTKSGKVFPVDTHDWKLLFSNIESVLKQYLD---DGYKLVIFTNQGAIGRKKMST 89
DGTLI+ F VD D KL F V+ Q L GYKLV+ TNQ +G +
Sbjct: 22 DGTLISEPPSD-FQVDRFD-KLAFE--PGVIPQLLKLQKAGYKLVMITNQDGLGTQSFPQ 77
Query: 90 RDF 92
DF
Sbjct: 78 ADF 80
>pdb|2GMW|A Chain A, Crystal Structure Of D,D-Heptose 1.7-Bisphosphate
Phosphatase From E. Coli.
pdb|2GMW|B Chain B, Crystal Structure Of D,D-Heptose 1.7-Bisphosphate
Phosphatase From E. Coli.
pdb|3ESQ|A Chain A, Crystal Structure Of Calcium-Bound D,D-Heptose
1.7-Bisphosphate Phosphatase From E. Coli
pdb|3ESR|A Chain A, Crystal Structure Of D,D-Heptose1.7-Bisphosphate
Phosphatase From E. Coli In Complex With Calcium And
Phosphate
pdb|3L1U|A Chain A, Crystal Structure Of Calcium-Bound Gmhb From E. Coli.
pdb|3L1U|B Chain B, Crystal Structure Of Calcium-Bound Gmhb From E. Coli.
pdb|3L1V|A Chain A, Crystal Structure Of Gmhb From E. Coli In Complex With
Calcium And Phosphate.
pdb|3L1V|B Chain B, Crystal Structure Of Gmhb From E. Coli In Complex With
Calcium And Phosphate
Length = 211
Score = 32.3 bits (72), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 38/90 (42%), Gaps = 4/90 (4%)
Query: 14 LVFTSNDVCNSAKIASFDLDGTLITTKSGKVFPVDTHDWKLLFSNIESVLKQYLDDGYKL 73
LV + + S D DGT I G V +D ++ + +++ G+ L
Sbjct: 14 LVPRGSHMAKSVPAIFLDRDGT-INVDHGYVHEIDNFEF---IDGVIDAMRELKKMGFAL 69
Query: 74 VIFTNQGAIGRKKMSTRDFQAKAEKIIKSL 103
V+ TNQ I R K + F+ E + SL
Sbjct: 70 VVVTNQSGIARGKFTEAQFETLTEWMDWSL 99
>pdb|3L8E|A Chain A, Crystal Structure Of Apo Form Of D,D-Heptose 1.7-
Bisphosphate Phosphatase From E. Coli
pdb|3L8E|B Chain B, Crystal Structure Of Apo Form Of D,D-Heptose 1.7-
Bisphosphate Phosphatase From E. Coli
Length = 187
Score = 31.6 bits (70), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 33/74 (44%), Gaps = 4/74 (5%)
Query: 30 FDLDGTLITTKSGKVFPVDTHDWKLLFSNIESVLKQYLDDGYKLVIFTNQGAIGRKKMST 89
D DGT I G V +D ++ + +++ G+ LV+ TNQ I R K +
Sbjct: 10 LDRDGT-INVDHGYVHEIDNFEF---IDGVIDAMRELKKMGFALVVVTNQSGIARGKFTE 65
Query: 90 RDFQAKAEKIIKSL 103
F+ E + SL
Sbjct: 66 AQFETLTEWMDWSL 79
>pdb|3ADB|A Chain A, Crystal Structure Of O-Phosphoseryl-Trna Kinase Complexed
With Selenocysteine Trna And Amppnp (Crystal Type 1)
pdb|3ADB|B Chain B, Crystal Structure Of O-Phosphoseryl-Trna Kinase Complexed
With Selenocysteine Trna And Amppnp (Crystal Type 1)
pdb|3ADC|A Chain A, Crystal Structure Of O-Phosphoseryl-Trna Kinase Complexed
With Selenocysteine Trna And Amppnp (Crystal Type 2)
pdb|3ADC|B Chain B, Crystal Structure Of O-Phosphoseryl-Trna Kinase Complexed
With Selenocysteine Trna And Amppnp (Crystal Type 2)
pdb|3ADD|A Chain A, Crystal Structure Of O-Phosphoseryl-Trna Kinase Complexed
With Selenocysteine Trna And Amppnp (Crystal Type 3)
pdb|3ADD|B Chain B, Crystal Structure Of O-Phosphoseryl-Trna Kinase Complexed
With Selenocysteine Trna And Amppnp (Crystal Type 3)
Length = 259
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 28/104 (26%), Positives = 46/104 (44%), Gaps = 17/104 (16%)
Query: 274 VLIMIGSQGSGKSSFVSTYLKPLNYTTVNRDTLGS---------W-QKCVSVMKAA---- 319
++I+ G G GKS+F K L+ ++ LGS W +K +K +
Sbjct: 13 LIILTGLPGVGKSTFSKNLAKILSKNNIDVIVLGSDLIRESFPVWKEKYEEFIKKSTYRL 72
Query: 320 LDSGLS---VVVDNTNPDKESRHRYIEAAKQHGVRCIAVHMNIS 360
+DS L V+VD+TN R I AK++ +++ S
Sbjct: 73 IDSALKNYWVIVDDTNYYNSXRRDLINIAKKYNKNYAIIYLKAS 116
>pdb|3L8F|A Chain A, Crystal Structure Of D,D-Heptose 1.7-Bisphosphate
Phosphatase From E. Coli Complexed With Magnesium And
Phosphate
pdb|3L8G|A Chain A, Crystal Structure Of D,D-Heptose 1.7-Bisphosphate
Phosphatase From E. Coli Complexed With
D-Glycero-D-Manno- Heptose 1 ,7-Bisphosphate
Length = 187
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 31/71 (43%), Gaps = 10/71 (14%)
Query: 30 FDLDGTLITTKSGKVFPVDTHDWKLLFSNIESVL---KQYLDDGYKLVIFTNQGAIGRKK 86
D DGT I G V +D F I+ V+ ++ G+ LV+ TNQ I R K
Sbjct: 10 LDRDGT-INVDHGYVHEIDN------FEFIDGVIDAXRELKKXGFALVVVTNQSGIARGK 62
Query: 87 MSTRDFQAKAE 97
+ F+ E
Sbjct: 63 FTEAQFETLTE 73
>pdb|3A4L|A Chain A, Crystal Structure Of Archaeal O-Phosphoseryl-Trna(Sec)
Kinase
pdb|3A4L|B Chain B, Crystal Structure Of Archaeal O-Phosphoseryl-Trna(Sec)
Kinase
pdb|3A4M|A Chain A, Crystal Structure Of Archaeal O-Phosphoseryl-Trna(Sec)
Kinase
pdb|3A4M|B Chain B, Crystal Structure Of Archaeal O-Phosphoseryl-Trna(Sec)
Kinase
pdb|3A4N|A Chain A, Crystal Structure Of Archaeal O-Phosphoseryl-Trna(Sec)
Kinase
pdb|3A4N|B Chain B, Crystal Structure Of Archaeal O-Phosphoseryl-Trna(Sec)
Kinase
pdb|3AM1|A Chain A, Crystal Structure Of O-Phosphoseryl-Trna Kinase Complexed
With Anticodon-StemLOOP TRUNCATED TRNA(SEC)
Length = 260
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 28/104 (26%), Positives = 46/104 (44%), Gaps = 17/104 (16%)
Query: 274 VLIMIGSQGSGKSSFVSTYLKPLNYTTVNRDTLGS---------W-QKCVSVMKAA---- 319
++I+ G G GKS+F K L+ ++ LGS W +K +K +
Sbjct: 6 LIILTGLPGVGKSTFSKNLAKILSKNNIDVIVLGSDLIRESFPVWKEKYEEFIKKSTYRL 65
Query: 320 LDSGLS---VVVDNTNPDKESRHRYIEAAKQHGVRCIAVHMNIS 360
+DS L V+VD+TN R I AK++ +++ S
Sbjct: 66 IDSALKNYWVIVDDTNYYNSMRRDLINIAKKYNKNYAIIYLKAS 109
>pdb|2L82|A Chain A, Solution Nmr Structure Of De Novo Designed Protein, P-Loop
Ntpase Fold, Northeast Structural Genomics Consortium
Target Or32
Length = 162
Score = 29.3 bits (64), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 21/43 (48%)
Query: 324 LSVVVDNTNPDKESRHRYIEAAKQHGVRCIAVHMNISKEHAKH 366
L VVV T DKE +IE AK+ GV V+ N + K
Sbjct: 78 LDVVVIVTTDDKEWIKDFIEEAKERGVEVFVVYNNKDDDRRKE 120
>pdb|3THW|B Chain B, Human Mutsbeta Complexed With An Idl Of 4 Bases (Loop4)
And Adp
pdb|3THX|B Chain B, Human Mutsbeta Complexed With An Idl Of 3 Bases (Loop3)
And Adp
pdb|3THY|B Chain B, Human Mutsbeta Complexed With An Idl Of 2 Bases (Loop2)
And Adp
pdb|3THZ|B Chain B, Human Mutsbeta Complexed With An Idl Of 6 Bases (Loop6)
And Adp
Length = 918
Score = 29.3 bits (64), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 41/85 (48%), Gaps = 11/85 (12%)
Query: 211 QSQTIPN---IPHDKKQVLIMIGSQGSGKSSFVSTYLKPLNYTTVNRDTLGSWQKCVSVM 267
Q Q +PN + D ++V+I+ G GKSS Y+K + T+ +GS+
Sbjct: 658 QDQYVPNNTDLSEDSERVMIITGPNMGGKSS----YIKQVALITIMAQ-IGSYVPAEEAT 712
Query: 268 KAALDSVLIMIGSQGS---GKSSFV 289
+D + +G+ + G+S+F+
Sbjct: 713 IGIVDGIFTRMGAADNIYKGRSTFM 737
>pdb|3L8H|A Chain A, Crystal Structure Of D,D-Heptose 1.7-Bisphosphate
Phosphatase From B. Bronchiseptica Complexed With
Magnesium And Phosphate
pdb|3L8H|B Chain B, Crystal Structure Of D,D-Heptose 1.7-Bisphosphate
Phosphatase From B. Bronchiseptica Complexed With
Magnesium And Phosphate
pdb|3L8H|C Chain C, Crystal Structure Of D,D-Heptose 1.7-Bisphosphate
Phosphatase From B. Bronchiseptica Complexed With
Magnesium And Phosphate
pdb|3L8H|D Chain D, Crystal Structure Of D,D-Heptose 1.7-Bisphosphate
Phosphatase From B. Bronchiseptica Complexed With
Magnesium And Phosphate
Length = 179
Score = 28.5 bits (62), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 27/121 (22%), Positives = 51/121 (42%), Gaps = 11/121 (9%)
Query: 26 KIASFDLDGTLITTKSGKVFPVDTHDWKLLFSNIESVLKQYLDDGYKLVIFTNQGAIGRK 85
K+ D DG + + F +W L +++++ + D + +V+ TNQ + R
Sbjct: 2 KLIILDRDG--VVNQDSDAFVKSPDEWIALPGSLQAIARLTQAD-WTVVLATNQSGLARG 58
Query: 86 KMSTRDFQAKAEKIIKSL----NVPVQMFVATQYD----RYRKPVPGMWEYLSQEKNGDL 137
T A +K ++L V +F RKP+PG + +++ + DL
Sbjct: 59 LFDTATLNAIHDKXHRALAQXGGVVDAIFXCPHGPDDGCACRKPLPGXYRDIARRYDVDL 118
Query: 138 A 138
A
Sbjct: 119 A 119
>pdb|3SD7|A Chain A, 1.7 Angstrom Resolution Crystal Structure Of Putative
Phosphatase From Clostridium Difficile
Length = 240
Score = 28.1 bits (61), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 17/29 (58%)
Query: 14 LVFTSNDVCNSAKIASFDLDGTLITTKSG 42
L F SN + + +I FDLDGTL K G
Sbjct: 18 LYFQSNAMKKNYEIVLFDLDGTLTDPKEG 46
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
0.317 0.132 0.388
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,459,263
Number of Sequences: 62578
Number of extensions: 398962
Number of successful extensions: 1388
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 1352
Number of HSP's gapped (non-prelim): 34
length of query: 369
length of database: 14,973,337
effective HSP length: 100
effective length of query: 269
effective length of database: 8,715,537
effective search space: 2344479453
effective search space used: 2344479453
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 52 (24.6 bits)