RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16743
(114 letters)
>1p6x_A Thymidine kinase; P-loop, LID, transferase; HET: THM; 2.00A {Equid
herpesvirus 4} SCOP: c.37.1.1 PDB: 1p72_A* 1p73_A*
1p75_A*
Length = 334
Score = 96.0 bits (238), Expect = 3e-25
Identities = 17/125 (13%), Positives = 31/125 (24%), Gaps = 19/125 (15%)
Query: 2 RWNFSFQHYVQLTRLQMQTKV-------------TDKKVQLFERSLQNNRFCFVEMARAQ 48
+Q L + +F+R + CF
Sbjct: 78 LITAHYQSRFTTPYLILHDHTCTLFGGNSLQRGTQPDLTLVFDRHPVASTVCFPAARYLL 137
Query: 49 GFLSKQEFLAMSEWYDWVENNMDIGLDLIVYLRSCPKTVHERMLKRNRPEENCVPLDYLQ 108
G +S +AM + IV + R+ R R E + + +
Sbjct: 138 GDMSMCALMAMVATL-----PREPQGGNIVVTTLNVEEHIRRLRTRARIGEQ-IDITLIA 191
Query: 109 SLHES 113
+L
Sbjct: 192 TLRNV 196
>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein,
feedback inhibition, deoxyribonucleoside kinase, salvage
pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP:
c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A*
2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A*
1zm7_A* 1zmx_A*
Length = 230
Score = 93.6 bits (232), Expect = 4e-25
Identities = 51/111 (45%), Positives = 74/111 (66%)
Query: 2 RWNFSFQHYVQLTRLQMQTKVTDKKVQLFERSLQNNRFCFVEMARAQGFLSKQEFLAMSE 61
+W FQ YV LT LQ T T+KK+++ ERS+ + R+CFVE R G L + + + E
Sbjct: 75 KWAMPFQSYVTLTMLQSHTAPTNKKLKIMERSIFSARYCFVENMRRNGSLEQGMYNTLEE 134
Query: 62 WYDWVENNMDIGLDLIVYLRSCPKTVHERMLKRNRPEENCVPLDYLQSLHE 112
WY ++E ++ + DLI+YLR+ P+ +ER+ +R R EE+CVPL YLQ LHE
Sbjct: 135 WYKFIEESIHVQADLIIYLRTSPEVAYERIRQRARSEESCVPLKYLQELHE 185
>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex,
transferase; HET: DTP; 2.80A {Homo sapiens} SCOP:
c.37.1.1
Length = 241
Score = 90.6 bits (224), Expect = 6e-24
Identities = 37/120 (30%), Positives = 65/120 (54%), Gaps = 9/120 (7%)
Query: 2 RWNFSFQHYVQLTRLQMQTKVTD-------KKVQLFERSLQNNRFCFVEMARAQGFLSKQ 54
RW+++FQ + L+RL++Q + K VQ+FERS+ ++R+ F + G LS
Sbjct: 69 RWSYTFQTFSFLSRLKVQLEPFPEKLLQARKPVQIFERSVYSDRYIFAKNLFENGSLSDI 128
Query: 55 EFLAMSEWYDWVENNM--DIGLDLIVYLRSCPKTVHERMLKRNRPEENCVPLDYLQSLHE 112
E+ +W+ ++ I L +YL++ P+ +R+ +R R EE + L YL+ LH
Sbjct: 129 EWHIYQDWHSFLLWEFASRITLHGFIYLQASPQVCLKRLYQRAREEEKGIELAYLEQLHG 188
>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC,
cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo
sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B*
2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A*
2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A*
2zi7_B* 2zia_A* 3kfx_A* ...
Length = 263
Score = 86.8 bits (214), Expect = 3e-22
Identities = 41/120 (34%), Positives = 67/120 (55%), Gaps = 9/120 (7%)
Query: 2 RWNFSFQHYVQLTRLQMQ-------TKVTDKKVQLFERSLQNNRFCFVEMARAQGFLSKQ 54
RW+F+FQ Y L+R++ Q K +K V FERS+ ++R+ F +++
Sbjct: 94 RWSFTFQTYACLSRIRAQLASLNGKLKDAEKPVLFFERSVYSDRYIFASNLYESECMNET 153
Query: 55 EFLAMSEWYDWVENNM--DIGLDLIVYLRSCPKTVHERMLKRNRPEENCVPLDYLQSLHE 112
E+ +W+DW+ N + LD I+YL++ P+T R+ R R EE +PL+YL+ LH
Sbjct: 154 EWTIYQDWHDWMNNQFGQSLELDGIIYLQATPETCLHRIYLRGRNEEQGIPLEYLEKLHY 213
>1osn_A Thymidine kinase, VZV-TK; chickenpox, BVDU-MP, transferase; HET:
BVP ADP; 3.20A {Human herpesvirus 3} SCOP: c.37.1.1
Length = 341
Score = 84.8 bits (209), Expect = 4e-21
Identities = 19/105 (18%), Positives = 31/105 (29%), Gaps = 6/105 (5%)
Query: 9 HYVQLTRLQMQTKVTDKKVQLFERSLQNNRFCFVEMARAQGFLSKQEFLAMSEWYDWVEN 68
T +Q K+ L +R + CF G +S +
Sbjct: 107 LMDTSTSDLVQVNKEPYKIMLSDRHPIASTICFPLSRYLVGDMSPAALPGL-----LFTL 161
Query: 69 NMDIGLDLIVYLRSCPKTVHERMLKRNRPEENCVPLDYLQSLHES 113
+ +V + R+ KR RP E V L ++ L
Sbjct: 162 PAEPPGTNLVVCTVSLPSHLSRVSKRARPGET-VNLPFVMVLRNV 205
>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase;
HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A*
2jas_A*
Length = 205
Score = 80.4 bits (198), Expect = 3e-20
Identities = 24/117 (20%), Positives = 55/117 (47%), Gaps = 7/117 (5%)
Query: 2 RWNFSFQHYVQLTRLQMQTKVTDKKVQLFERSLQNNRFCFVEMARAQGFLSKQEFLAMSE 61
+ F Q Y+ R + + + + +F+R+L + F+++ + + ++ +
Sbjct: 48 KTVFKMQIYMLTARSKQLKQAKNLENIIFDRTLLED-PIFMKVNYDLNNVDQTDYNTYID 106
Query: 62 WYDWVENNM------DIGLDLIVYLRSCPKTVHERMLKRNRPEENCVPLDYLQSLHE 112
+Y+ V + D+++YLR KT R+ KR R EE + +Y ++L++
Sbjct: 107 FYNNVVLENLKIPENKLSFDIVIYLRVSTKTAISRIKKRGRSEELLIGEEYWETLNK 163
>1of1_A Thymidine kinase; transferase, antiviral drug, enzyme- prodrug
gene, DNA synthesis, ATP-binding; HET: SCT; 1.95A
{Herpes simplex virus} SCOP: c.37.1.1
Length = 376
Score = 79.9 bits (196), Expect = 3e-19
Identities = 17/100 (17%), Positives = 28/100 (28%), Gaps = 6/100 (6%)
Query: 14 TRLQMQTKVTDKKVQLFERSLQNNRFCFVEMARAQGFLSKQEFLAMSEWYDWVENNMDIG 73
+F+R C+ G ++ Q LA +
Sbjct: 145 GEAGSSHAPPPALTLIFDRHPIAALLCYPAARYLMGSMTPQAVLAFVALIPP-----TLP 199
Query: 74 LDLIVYLRSCPKTVHERMLKRNRPEENCVPLDYLQSLHES 113
IV +R+ KR RP E + L L ++
Sbjct: 200 GTNIVLGALPEDRHIDRLAKRQRPGER-LDLAMLAAIRRV 238
>1e2k_A Thymidine kinase; transferase, antiviral drug, enzyme-prodrug gene
therapy, sugar ring pucker; HET: TMC; 1.7A {Herpes
simplex virus} SCOP: c.37.1.1 PDB: 1e2i_A* 1e2h_A*
1e2m_A* 1e2n_A* 1e2p_A* 1ki2_A* 1ki3_A* 1ki4_A* 1ki6_B*
1ki7_A* 1ki8_A* 3rdp_A* 2ki5_A* 1kim_A* 1qhi_A* 1p7c_A*
1vtk_A* 2vtk_A* 3vtk_A* 3f0t_A* ...
Length = 331
Score = 77.1 bits (189), Expect = 3e-18
Identities = 17/100 (17%), Positives = 28/100 (28%), Gaps = 6/100 (6%)
Query: 14 TRLQMQTKVTDKKVQLFERSLQNNRFCFVEMARAQGFLSKQEFLAMSEWYDWVENNMDIG 73
+F+R C+ G ++ Q LA +
Sbjct: 100 GEAGSSHAPPPALTLIFDRHPIAALLCYPAARYLMGSMTPQAVLAFVALIPP-----TLP 154
Query: 74 LDLIVYLRSCPKTVHERMLKRNRPEENCVPLDYLQSLHES 113
IV +R+ KR RP E + L L ++
Sbjct: 155 GTNIVLGALPEDRHIDRLAKRQRPGER-LDLAMLAAIRRV 193
>1kht_A Adenylate kinase; phosphotransferase, signaling protein,
transferase; HET: AMP; 2.50A {Methanococcus voltae}
SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A
Length = 192
Score = 28.9 bits (64), Expect = 0.28
Identities = 6/33 (18%), Positives = 14/33 (42%), Gaps = 3/33 (9%)
Query: 71 DIGLDLIVYLRSCPKTVHERMLK---RNRPEEN 100
++ DLI+ + + + R + R R +
Sbjct: 112 ELNPDLIIVVETTGDEILMRRMSDETRVRDLDT 144
>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins
(A/B), protein binding, transferase, phosphotransferase;
HET: ADP; 1.76A {Homo sapiens} PDB: 3iik_A 3iil_A*
3iim_A* 1rkb_A
Length = 180
Score = 28.5 bits (63), Expect = 0.37
Identities = 7/37 (18%), Positives = 16/37 (43%)
Query: 63 YDWVENNMDIGLDLIVYLRSCPKTVHERMLKRNRPEE 99
Y + + ++ LR+ ++ER+ R E+
Sbjct: 86 YHGCDFFPERWFHIVFVLRTDTNVLYERLETRGYNEK 122
>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A
{Sulfolobus acidocaldarius} SCOP: c.37.1.1
Length = 194
Score = 28.2 bits (62), Expect = 0.49
Identities = 9/32 (28%), Positives = 15/32 (46%), Gaps = 3/32 (9%)
Query: 71 DIGLDLIVYLRSCPKTVHERMLK---RNRPEE 99
+I +I L + PK + R + RNR +
Sbjct: 113 EINPSVIFLLEADPKIILSRQKRDTTRNRNDY 144
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 28.3 bits (62), Expect = 0.54
Identities = 19/119 (15%), Positives = 41/119 (34%), Gaps = 31/119 (26%)
Query: 4 NFSFQH--YVQLTRLQMQTKVTDKKVQLFERSLQNNRFCFVEMARAQGFLSKQEFLAMSE 61
+ + H + L ++ +++ LF + RF +Q+ S
Sbjct: 471 QYFYSHIGH-HLKNIEH-----PERMTLFRMVFLDFRFL------------EQKIRHDST 512
Query: 62 WYDWVENNMDIGLDLIVYLR----SCPKTVHERMLKR-----NRPEENCVPLDYLQSLH 111
++ + ++ L Y + PK +ER++ + EEN + Y L
Sbjct: 513 AWNASGSILNTLQQLKFYKPYICDNDPK--YERLVNAILDFLPKIEENLICSKYTDLLR 569
>1y63_A LMAJ004144AAA protein; structural genomics, protein structure
initiative, PSI, SGPP structural genomics of pathogenic
protozoa consortium; HET: ADP; 1.70A {Leishmania major}
SCOP: c.37.1.1
Length = 184
Score = 27.8 bits (61), Expect = 0.70
Identities = 7/30 (23%), Positives = 14/30 (46%)
Query: 70 MDIGLDLIVYLRSCPKTVHERMLKRNRPEE 99
+ ++V L + + + ER+ KR E
Sbjct: 97 PERWFHMVVVLHTSTEVLFERLTKRQYSEA 126
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 26.9 bits (59), Expect = 1.5
Identities = 11/38 (28%), Positives = 16/38 (42%), Gaps = 11/38 (28%)
Query: 13 LTRLQMQTKV--------TDKKVQLFERSLQNNRFCFV 42
LT+ Q+Q V K+V++ SL N V
Sbjct: 344 LTQEQVQDYVNKTNSHLPAGKQVEI---SLVNGAKNLV 378
>1yc9_A VCEC, multidrug resistance protein; outer membrane protein,
multidrug resistanc membrane protein; HET: BOG; 1.80A
{Vibrio cholerae}
Length = 442
Score = 26.1 bits (58), Expect = 2.5
Identities = 6/34 (17%), Positives = 15/34 (44%), Gaps = 2/34 (5%)
Query: 8 QHYVQLTRLQMQTKVTDKKVQLFERSLQ--NNRF 39
Y +L RL + +Q+ ++++ R+
Sbjct: 149 NAYAELARLYANQETVHAALQVRNKTVELLEKRY 182
>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein
struct initiative, northeast structural genomics
consortium, NESG, function; 2.40A {Bacillus halodurans}
SCOP: c.37.1.25
Length = 189
Score = 26.1 bits (57), Expect = 2.9
Identities = 6/39 (15%), Positives = 14/39 (35%)
Query: 61 EWYDWVENNMDIGLDLIVYLRSCPKTVHERMLKRNRPEE 99
V+ +D + L + + + R R + E+
Sbjct: 89 ALAQTVQAKVDDVEIRFIILWTNREELLRRDALRKKDEQ 127
>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding,
structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A
{Sulfolobus tokodaii}
Length = 213
Score = 25.7 bits (57), Expect = 3.2
Identities = 11/39 (28%), Positives = 17/39 (43%), Gaps = 2/39 (5%)
Query: 63 YDWVENNMDIGL--DLIVYLRSCPKTVHERMLKRNRPEE 99
DWV+ + D+ Y+R P ER+ K R +
Sbjct: 109 IDWVKKLYSFAIKPDITFYIRVSPDIALERIKKSKRKIK 147
>3vaa_A Shikimate kinase, SK; structural genomics, center for structural
genomics of infec diseases, csgid, metal binding,
transferase; 1.70A {Bacteroides thetaiotaomicron}
Length = 199
Score = 25.7 bits (57), Expect = 3.8
Identities = 9/35 (25%), Positives = 15/35 (42%), Gaps = 4/35 (11%)
Query: 67 ENNMDI--GLDLIVYLRSCPKTVHERML--KRNRP 97
+NM+ V+L P + R+ K+ RP
Sbjct: 109 YDNMEFMNRTGKTVFLNVHPDVLFRRLRIAKQQRP 143
>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid
biosynthesis, P-loop kinase, metal- binding, shikimate
pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis}
SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A*
2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A*
1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A*
3baf_A*
Length = 184
Score = 25.2 bits (56), Expect = 5.2
Identities = 7/40 (17%), Positives = 12/40 (30%), Gaps = 6/40 (15%)
Query: 77 IVYLRSCPKTVHERM-LKRNRP---EENCVPLDYLQSLHE 112
+VYL R RP + + ++L
Sbjct: 97 VVYLEISAAEGVRRTGGNTVRPLLAGPD--RAEKYRALMA 134
>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI,
protein structure initiative; 2.05A {Escherichia coli}
SCOP: c.37.1.2
Length = 173
Score = 24.8 bits (55), Expect = 5.7
Identities = 9/40 (22%), Positives = 18/40 (45%), Gaps = 3/40 (7%)
Query: 76 LIVYLRSCPKTVHERMLK-RNRP--EENCVPLDYLQSLHE 112
++VYL + + R + + RP P + L++L
Sbjct: 99 VVVYLETTIEKQLARTQRDKKRPLLHVETPPREVLEALAN 138
>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A
{Coxiella burnetii}
Length = 185
Score = 24.9 bits (55), Expect = 5.8
Identities = 11/43 (25%), Positives = 22/43 (51%), Gaps = 8/43 (18%)
Query: 76 LIVYLRSCPKTVHERMLKR---NRP---EENCVPLDYLQSLHE 112
+++YL + T +R+ ++ RP + N + LQ L+E
Sbjct: 100 VVIYLTASIDTQLKRIGQKGEMRRPLFIKNN--SKEKLQQLNE 140
>1okc_A ADP, ATP carrier protein heart isoform T1; mitochondrial
transporter, nucleotide translocation, membrane
protein, transport; HET: CXT CDL LDM PC1; 2.2A {Bos
taurus} SCOP: f.42.1.1 PDB: 2c3e_A*
Length = 297
Score = 24.9 bits (55), Expect = 6.1
Identities = 10/39 (25%), Positives = 17/39 (43%), Gaps = 3/39 (7%)
Query: 14 TRLQMQTKVTDKKVQLFERSLQNNRFCFVEMARAQGFLS 52
LQ+Q + + + + C V + + QGFLS
Sbjct: 33 LLLQVQHASKQISAEKQYKGIID---CVVRIPKEQGFLS 68
>3bk2_A RNAse J, metal dependent hydrolase; endoribonuclease,
exoribonuclease, metallo-beta-lactamase; HET: U5P; 2.10A
{Thermus thermophilus} PDB: 3bk1_A* 3t3o_A* 3t3n_A*
Length = 562
Score = 24.8 bits (55), Expect = 7.2
Identities = 7/29 (24%), Positives = 12/29 (41%), Gaps = 4/29 (13%)
Query: 23 TDKKVQLFERSLQNNRFCFVEMARAQGFL 51
+KV + RS+ +A G+L
Sbjct: 264 YGRKVAMEGRSMLKF----SRIALELGYL 288
>3zq4_A Ribonuclease J 1, RNAse J1; hydrolase, RNA maturation; 3.00A
{Bacillus subtilis}
Length = 555
Score = 24.8 bits (55), Expect = 9.4
Identities = 10/42 (23%), Positives = 21/42 (50%), Gaps = 7/42 (16%)
Query: 13 LTRLQM---QTKVTDKKVQLFERSLQNNRFCFVEMARAQGFL 51
+ RLQ +KV +F RS+++ +E+ + G++
Sbjct: 235 IHRLQQVIEAAVQNGRKVAVFGRSMESA----IEIGQTLGYI 272
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.324 0.134 0.419
Gapped
Lambda K H
0.267 0.0817 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,697,485
Number of extensions: 81741
Number of successful extensions: 337
Number of sequences better than 10.0: 1
Number of HSP's gapped: 324
Number of HSP's successfully gapped: 37
Length of query: 114
Length of database: 6,701,793
Length adjustment: 77
Effective length of query: 37
Effective length of database: 4,551,876
Effective search space: 168419412
Effective search space used: 168419412
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (23.3 bits)