RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1618
(178 letters)
>3ztp_A Nucleoside diphosphate kinase; transferase; HET: GOL; 1.37A
{Aquifex aeolicus} PDB: 3zto_A* 3ztq_A 3ztr_A 3zts_A
Length = 142
Score = 82.2 bits (204), Expect = 1e-20
Identities = 44/112 (39%), Positives = 65/112 (58%), Gaps = 4/112 (3%)
Query: 49 EYTLALVKPHAFR--HVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 106
E TL +VKP A + I ++GF I K F+FTPE+A EF+ ER P
Sbjct: 4 ERTLIIVKPDAMEKGALGKILDRFIQEGFQIKALKMFRFTPEKAGEFYYVHRER-PF-FQ 61
Query: 107 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVN 158
LV +M SGPV VL + AI+R ++GP D ++A+++ P S+RA++G +
Sbjct: 62 ELVEFMSSGPVVAAVLEGEDAIKRVREIIGPTDSEEARKVAPNSIRAQFGTD 113
>4ek2_A Nucleoside diphosphate kinase; seattle structural genomics center
for infectious disease, S DAMP, niaid; HET: DA; 2.00A
{Burkholderia thailandensis} PDB: 4dut_A*
Length = 145
Score = 76.0 bits (188), Expect = 3e-18
Identities = 35/112 (31%), Positives = 54/112 (48%), Gaps = 7/112 (6%)
Query: 49 EYTLALVKPHAFR--HVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 106
E TL+++KP A + I + G IV + + A +F+ ER P
Sbjct: 8 ERTLSIIKPDAVAKNVIGQIYSRFENAGLKIVAARMAHLSRADAEKFYAVHAER-PF-FK 65
Query: 107 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVN 158
LV +M+SGPV + VL + AI + LMG DP KA+ ++RA + +
Sbjct: 66 DLVEFMISGPVMIQVLEGEDAILKNRDLMGATDPKKAE---KGTIRADFADS 114
>2hur_A NDK, nucleoside diphosphate kinase, NDP kinase; type II tetramer,
signaling protein,transferase; 1.62A {Escherichia coli}
Length = 142
Score = 75.6 bits (187), Expect = 3e-18
Identities = 36/112 (32%), Positives = 55/112 (49%), Gaps = 7/112 (6%)
Query: 49 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 106
E T +++KP+A + +I + GF IV K T EQA F+ + + P
Sbjct: 3 ERTFSIIKPNAVAKNVIGNIFARFEAAGFKIVGTKMLHLTVEQARGFYAEHDGK-PF-FD 60
Query: 107 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVN 158
LV +M SGP+ V VL + A++R L+G +P A +LRA Y +
Sbjct: 61 GLVEFMTSGPIVVSVLEGENAVQRHRDLLGATNPANAL---AGTLRADYADS 109
>1nhk_R Nucleoside diphosphate kinase; phosphotransferase; HET: CMP; 1.90A
{Myxococcus xanthus} SCOP: d.58.6.1 PDB: 1nlk_R* 2nck_R
3pj9_A
Length = 144
Score = 75.2 bits (186), Expect = 5e-18
Identities = 31/112 (27%), Positives = 52/112 (46%), Gaps = 7/112 (6%)
Query: 49 EYTLALVKPHAFR--HVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 106
E TL+++KP + I +EKG V + + QA F+ + R P
Sbjct: 3 ERTLSIIKPDGLEKGVIGKIISRFEEKGLKPVAIRLQHLSQAQAEGFYAVHKAR-PF-FK 60
Query: 107 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVN 158
LV +M+SGPV +MVL + A+ +MG +P +A ++R + +
Sbjct: 61 DLVQFMISGPVVLMVLEGENAVLANRDIMGATNPAQAA---EGTIRKDFATS 109
>4dz6_A Nucleoside diphosphate kinase; ssgcid, niaid, vanada transition
state mimic, transition state analog, transferas; HET:
ADP; 2.20A {Borrelia burgdorferi} PDB: 4di6_A*
Length = 190
Score = 74.4 bits (183), Expect = 3e-17
Identities = 21/115 (18%), Positives = 43/115 (37%), Gaps = 8/115 (6%)
Query: 49 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 106
+ TL +VKP + D+ + G +V K A + ++ +
Sbjct: 27 QKTLCIVKPDGVRRGLIGDVVSRFERVGLKMVAAKMLIVDESLAKKHYLYDDIVFRHSEA 86
Query: 107 ---RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVN 158
L+ ++ + PV V+ ++I L G +P A P ++R + +
Sbjct: 87 VWNSLIKFISNSPVFTFVVEGVESIEVVRKLCGATEPKLAI---PGTIRGDFSYH 138
>3mpd_A Nucleoside diphosphate kinase; ssgcid, NIH, niaid, SBRI, UW,
emerald biostructures, encepha cuniculi, structural
genomics; 2.08A {Encephalitozoon cuniculi}
Length = 151
Score = 72.6 bits (179), Expect = 6e-17
Identities = 30/112 (26%), Positives = 45/112 (40%), Gaps = 7/112 (6%)
Query: 49 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 106
E T ++KP A R + I Q +EKG + K E + P
Sbjct: 6 ERTFIMIKPDAIKRRLISRIIQRFEEKGLYLAASKCVIPKREVLETHYSHLSSM-PF-FS 63
Query: 107 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVN 158
+V M+SG V MV + A+ L+G +P A ++R YGV+
Sbjct: 64 EMVEDMMSGMVLAMVWVGKDAVSIGRKLIGETNPQAAS---VGTIRGDYGVS 112
>2dxe_A Nucleoside diphosphate kinase; nucleoside binding, structural
genomics, NPPSFA, NAT project on protein structural and
functional analyses; HET: GDP; 1.70A {Pyrococcus
horikoshii} SCOP: d.58.6.1 PDB: 2dxd_A* 2cwk_A* 2dxf_A*
2dy9_A* 2dya_A*
Length = 160
Score = 72.6 bits (179), Expect = 6e-17
Identities = 32/112 (28%), Positives = 50/112 (44%), Gaps = 7/112 (6%)
Query: 49 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 106
E TL ++KP A + +I ++KG IV K E A + + E+ P
Sbjct: 8 ERTLVIIKPDAVVRGLIGEIISRFEKKGLKIVGMKMIWIDRELAEKHYEEHREK-PF-FK 65
Query: 107 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVN 158
L+ Y+ PV VMVL + A+ + G DP A P ++R +G+
Sbjct: 66 ALIDYITKTPVVVMVLEGRYAVEVVRKMAGATDPKDAA---PGTIRGDFGLE 114
>1wkj_A Nucleoside diphosphate kinase; thermus thermophilus HB8, riken
structural genomics/proteomics initiative, RSGI,
structural genomics; 2.00A {Thermus thermophilus} SCOP:
d.58.6.1 PDB: 1wkk_A* 1wkl_A*
Length = 137
Score = 71.4 bits (176), Expect = 1e-16
Identities = 31/112 (27%), Positives = 46/112 (41%), Gaps = 7/112 (6%)
Query: 49 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 106
E T ++KP V +I + KGF I K + + E A + E+ P P
Sbjct: 2 ERTFVMIKPDGVRRGLVGEILARFERKGFRIAALKLMQISQELAERHYAEHREK-PF-FP 59
Query: 107 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVN 158
LV ++ SGPV MVL + +MG P A P ++R +
Sbjct: 60 GLVRFITSGPVVAMVLEGPGVVAEVRKMMGATHPKDAL---PGTIRGDFATT 108
>1k44_A Nucleoside diphosphate kinase; nucleoside triphosphate,
transferase; 2.60A {Mycobacterium tuberculosis} SCOP:
d.58.6.1
Length = 136
Score = 71.4 bits (176), Expect = 1e-16
Identities = 30/112 (26%), Positives = 52/112 (46%), Gaps = 6/112 (5%)
Query: 49 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 106
E TL L+KP + + +I I+ KG TI + + E A++ + E + P
Sbjct: 3 ERTLVLIKPDGIERQLIGEIISRIERKGLTIAALQLRTVSAELASQHYAEHEGK-PF-FG 60
Query: 107 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVN 158
L+ ++ SGPV ++ +AI L G DP +A P ++R + +
Sbjct: 61 SLLEFITSGPVVAAIVEGTRAIAAVRQLAGGTDPVQAAA--PGTIRGDFALE 110
>1ehw_A NDPK H4, nucleoside diphosphate kinase; NM23, mitochondrial,
killer-O transferase; 2.40A {Homo sapiens} SCOP:
d.58.6.1
Length = 162
Score = 71.9 bits (177), Expect = 1e-16
Identities = 35/111 (31%), Positives = 50/111 (45%), Gaps = 7/111 (6%)
Query: 49 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 106
E TL VKP R V D+ Q + +GFT+V K + AE + + P P
Sbjct: 25 ERTLVAVKPDGVQRRLVGDVIQRFERRGFTLVGMKMLQAPESVLAEHYQDLRRK-PF-YP 82
Query: 107 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGV 157
L+ YM SGPV MV +R ++G D +A P ++R + V
Sbjct: 83 ALIRYMSSGPVVAMVWEGYNVVRASRAMIGHTDSAEAA---PGTIRGDFSV 130
>1w7w_A Nucleoside diphosphate kinase; NDPK3, transferase; 2.80A {Pisum
sativum} SCOP: d.58.6.1
Length = 182
Score = 71.9 bits (177), Expect = 2e-16
Identities = 31/112 (27%), Positives = 47/112 (41%), Gaps = 7/112 (6%)
Query: 49 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 106
E T +KP + +I + KGF +V K T + A + + +ER P
Sbjct: 33 ERTFIAIKPDGVQRGLISEIISRFERKGFKLVGIKVLIPTKQFAQQHYHDLKER-PF-FN 90
Query: 107 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVN 158
L ++ SGPV MV + I L+G DP K+ P ++R V
Sbjct: 91 GLCDFLSSGPVIAMVWEGEGVITYGRKLIGATDPQKSA---PGTIRGDLAVV 139
>2az3_A Nucleoside diphosphate kinase; halophilic, transferase; HET: CDP;
2.20A {Halobacterium salinarum} SCOP: d.58.6.1 PDB:
2az1_A 2zua_A
Length = 164
Score = 71.5 bits (176), Expect = 2e-16
Identities = 35/112 (31%), Positives = 50/112 (44%), Gaps = 7/112 (6%)
Query: 49 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 106
E T +VKP + DI ++ KG +V K + E A E + E++ P
Sbjct: 9 ERTFVMVKPDGVQRGLIGDIVTRLETKGLKMVGGKFMRIDEELAHEHYAEHEDK-PF-FD 66
Query: 107 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVN 158
LV ++ SGPV MV A R+ LMG D A P ++R YG +
Sbjct: 67 GLVSFITSGPVFAMVWEGADATRQVRQLMGATDAQDAA---PGTIRGDYGND 115
>4fkx_A NDK B, nucleoside diphosphate kinase; structural genomics, niaid,
national institute of allergy AN infectious diseases;
HET: CDP; 1.70A {Trypanosoma brucei brucei} PDB: 4fky_A*
4f4a_A* 4f36_A* 3prv_A 3ngs_A 3ngr_A 3ngt_A* 3ngu_A*
Length = 161
Score = 71.5 bits (176), Expect = 2e-16
Identities = 31/112 (27%), Positives = 50/112 (44%), Gaps = 7/112 (6%)
Query: 49 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 106
E T VKP V +I + + KG+ +V K + T EQA + +I + P
Sbjct: 12 ERTFIAVKPDGVQRNLVGEIIKRFENKGYKLVGLKLLQPTEEQAKQHYIDLASK-PF-YS 69
Query: 107 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVN 158
LV Y SGP+ MV ++ L+G +P + P ++R + V+
Sbjct: 70 GLVSYFSSGPIVGMVWEGLGVVKGGRVLLGATNPADSL---PGTIRGDFAVD 118
>3bbb_A Nucleoside diphosphate kinase B; transcription factor, cancer, NM23
GEN, hexamer, activator, oncogene, ATP-binding, cell
cycle, DNA-binding; HET: DG DA; 1.30A {Homo sapiens}
SCOP: d.58.6.1 PDB: 1nue_A* 3bbf_A* 1nsk_R 3bbc_A
1be4_A* 1bhn_A* 2hvd_A* 1jxv_A* 2hve_A* 1ucn_A* 1nsq_A*
1ndl_A*
Length = 151
Score = 71.0 bits (175), Expect = 2e-16
Identities = 31/112 (27%), Positives = 53/112 (47%), Gaps = 7/112 (6%)
Query: 49 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 106
E T +KP V +I + ++KGF +V K + + E + +I ++R P P
Sbjct: 4 ERTFIAIKPDGVQRGLVGEIIKRFEQKGFRLVAMKFLRASEEHLKQHYIDLKDR-PF-FP 61
Query: 107 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVN 158
LV YM SGPV MV ++ ++G +P +K P ++R + +
Sbjct: 62 GLVKYMNSGPVVAMVWEGLNVVKTGRVMLGETNPADSK---PGTIRGDFCIQ 110
>3fkb_A NDP kinase, NDK, nucleoside diphosphate kinase, cytosolic; AN
hexamer structure, ATP-binding, magnesium, metal-
nucleotide metabolism; HET: TNM TNV; 1.65A
{Dictyostelium discoideum} PDB: 1b4s_A* 1mn9_A* 1f3f_A*
1hlw_A 1ndk_A 1pae_X 1f6t_A* 1bux_A* 1b99_A* 1hiy_A*
1kdn_A* 1ndc_A* 1ndp_A* 1nsp_A* 1s5z_A* 2bef_A* 1mn7_A*
1hhq_A 1lwx_A* 1npk_A ...
Length = 155
Score = 70.7 bits (174), Expect = 3e-16
Identities = 32/112 (28%), Positives = 50/112 (44%), Gaps = 7/112 (6%)
Query: 49 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 106
E T VKP V +I ++KGF +V K T + A + +ER P
Sbjct: 9 ERTFLAVKPDGVARGLVGEIIARYEKKGFVLVGLKQLVPTKDLAESHYAEHKER-PF-FG 66
Query: 107 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVN 158
LV ++ SGPV MV + + ++G +P + P S+R +GV+
Sbjct: 67 GLVSFITSGPVVAMVFEGKGVVASARLMIGVTNPLASA---PGSIRGDFGVD 115
>1zs6_A Nucleoside diphosphate kinase 3; nucleotide metabolism, apoptosis,
transferase, struc genomics, structural genomics
consortium, SGC; HET: ADP; 2.30A {Homo sapiens} SCOP:
d.58.6.1
Length = 169
Score = 71.1 bits (175), Expect = 3e-16
Identities = 36/112 (32%), Positives = 50/112 (44%), Gaps = 7/112 (6%)
Query: 49 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 106
E T VKP R V +I + + KGF +V K + + E E + ER P
Sbjct: 22 ERTFLAVKPDGVQRRLVGEIVRRFERKGFKLVALKLVQASEELLREHYAELRER-PF-YG 79
Query: 107 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVN 158
RLV YM SGPV MV +R L+G +P A P ++R + +
Sbjct: 80 RLVKYMASGPVVAMVWQGLDVVRTSRALIGATNPADAP---PGTIRGDFCIE 128
>3r9l_A Nucleoside diphosphate kinase; structural genomics, seattle
structural genomics center for infectious disease,
ssgcid, giardiasis; 2.65A {Giardia lamblia}
Length = 155
Score = 70.7 bits (174), Expect = 3e-16
Identities = 28/112 (25%), Positives = 46/112 (41%), Gaps = 7/112 (6%)
Query: 49 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 106
E T +VKP V +I + +GF +V K F + E + R P
Sbjct: 8 ERTFLMVKPDGVQRGLVGEIISRFERRGFKLVAMKFFVPSKNLVEEHYKEHAAR-PF-FA 65
Query: 107 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVN 158
L ++ SGPV MV + +MG P ++ P ++R +G++
Sbjct: 66 GLCKFLSSGPVCAMVWEGANVVSISRTMMGVTKPAESA---PGTIRGDFGID 114
>3l7u_A Nucleoside diphosphate kinase A; ATP-binding, nucleotide-binding,
transferase, tumor suppressor; 2.10A {Homo sapiens}
Length = 172
Score = 70.7 bits (174), Expect = 4e-16
Identities = 29/112 (25%), Positives = 52/112 (46%), Gaps = 7/112 (6%)
Query: 49 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 106
E T +KP V +I + ++KGF +V K + + + E ++ ++R P
Sbjct: 25 ERTFIAIKPDGVQRGLVGEIIKRFEQKGFRLVGLKFMQASEDLLKEHYVDLKDR-PF-FA 82
Query: 107 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVN 158
LV YM SGPV MV ++ ++G +P +K P ++R + +
Sbjct: 83 GLVKYMHSGPVVAMVWEGLNVVKTGRVMLGETNPADSK---PGTIRGDFCIQ 131
>1s57_A Nucleoside diphosphate kinase II; transferase; HET: EPE; 1.80A
{Arabidopsis thaliana} SCOP: d.58.6.1 PDB: 1s59_A*
Length = 153
Score = 70.3 bits (173), Expect = 5e-16
Identities = 31/112 (27%), Positives = 48/112 (42%), Gaps = 7/112 (6%)
Query: 49 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 106
E T +VKP V +I ++KGF ++ K F+ E A E + + P
Sbjct: 6 EETYIMVKPDGIQRGLVGEIISRFEKKGFKLIGLKMFQCPKELAEEHYKDLSAK-SF-FP 63
Query: 107 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVN 158
L+ Y+ SGPV M + L+G DP +A+ P ++R V
Sbjct: 64 NLIEYITSGPVVCMAWEGVGVVASARKLIGKTDPLQAE---PGTIRGDLAVQ 112
>2vu5_A Nucleoside diphosphate kinase; nucleotide-binding, ATP-binding,
metal-binding, phosphoprotein, nucleotide metabolism,
cytoplasm, magnesium; 2.0A {Bacillus anthracis}
Length = 148
Score = 69.9 bits (172), Expect = 5e-16
Identities = 34/112 (30%), Positives = 54/112 (48%), Gaps = 7/112 (6%)
Query: 49 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 106
E T +VKP + +I ++KGF +V K + TPE A + + EE+ P
Sbjct: 2 EKTFLMVKPDGVQRAFIGEIVARFEKKGFQLVGAKLMQVTPEIAGQHYAEHEEK-PF-FG 59
Query: 107 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVN 158
LV ++ SGPV MV + + ++MG P +A P ++R +GV
Sbjct: 60 ELVDFITSGPVFAMVWQGEGVVDTARNMMGKTRPHEAA---PGTIRGDFGVT 108
>3js9_A Nucleoside diphosphate kinase family protein; niaid, ssgcid,
seattle structural genomics center for infect disease,
babesiosis; 2.50A {Babesia bovis}
Length = 156
Score = 70.3 bits (173), Expect = 5e-16
Identities = 25/112 (22%), Positives = 50/112 (44%), Gaps = 7/112 (6%)
Query: 49 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 106
E T +VKP + +I + + KG ++ K T + A+ + +++ P
Sbjct: 10 ERTYIMVKPDGVQRGLIGEILKRFEMKGLKLIAAKFEHPTMDVVAQHYCEHKDK-PF-FK 67
Query: 107 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVN 158
L ++ GPV M+ +AI+ +L+G P ++ ++R +GV
Sbjct: 68 DLCDFISHGPVFCMIWEGPEAIKIGRNLVGLTSPVESA---AGTIRGDFGVV 116
>1nb2_A Nucleoside diphosphate kinase; bacillus halodenitrifians,
transferase; 2.20A {Virgibacillus halodenitrificans}
SCOP: d.58.6.1
Length = 150
Score = 69.9 bits (172), Expect = 6e-16
Identities = 28/112 (25%), Positives = 44/112 (39%), Gaps = 7/112 (6%)
Query: 49 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 106
E T +VKP V ++ + + KG + K + + AA + P
Sbjct: 3 ERTFLMVKPDGVQRNLVGEVVKRFESKGLKLAGAKLMVISKDGAAAHYAELGGG-PF-FG 60
Query: 107 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVN 158
LV SGPV MV A ++G +P A P ++R +GV+
Sbjct: 61 GLVGGATSGPVFAMVWEGLNAAATARQILGATNPSDAA---PGTIRGDFGVS 109
>1u8w_A Nucleoside diphosphate kinase I; nucleotide diphosphate,
transferase; 2.40A {Arabidopsis thaliana} SCOP: d.58.6.1
Length = 149
Score = 69.9 bits (172), Expect = 6e-16
Identities = 23/112 (20%), Positives = 48/112 (42%), Gaps = 7/112 (6%)
Query: 49 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 106
E T ++KP + ++ ++KGFT+ K A + + +
Sbjct: 2 EQTFIMIKPDGVQRGLIGEVICRFEKKGFTLKGLKLISVERSFAEKHYEDLSSK-SF-FS 59
Query: 107 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVN 158
LV Y+VSGPV M+ + + ++G +P ++ P ++R + ++
Sbjct: 60 GLVDYIVSGPVVAMIWEGKNVVLTGRKIIGATNPAASE---PGTIRGDFAID 108
>1pku_A Nucleoside diphosphate kinase I; RICE, transferase; 2.50A {Oryza
sativa} SCOP: d.58.6.1
Length = 150
Score = 69.5 bits (171), Expect = 7e-16
Identities = 29/112 (25%), Positives = 49/112 (43%), Gaps = 7/112 (6%)
Query: 49 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 106
E + ++KP + DI ++KGF + K A + + ++ P P
Sbjct: 3 EQSFIMIKPDGVQRGLIGDIISRFEKKGFYLRGMKFMNVERSFAQQHYADLSDK-PF-FP 60
Query: 107 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVN 158
LV Y++SGPV MV + + ++G P +A P ++RA Y V
Sbjct: 61 GLVEYIISGPVVAMVWEGKDVVATGRRIIGATRPWEAA---PGTIRADYAVE 109
>3q8u_A Nucleoside diphosphate kinase; ferridoxin fold, alpha-beta protein
family; HET: ADP; 2.22A {Staphylococcus aureus subsp}
PDB: 3q83_A* 3q89_A* 3q86_A* 3q8v_A* 3q8y_A*
Length = 157
Score = 69.9 bits (172), Expect = 8e-16
Identities = 28/112 (25%), Positives = 51/112 (45%), Gaps = 7/112 (6%)
Query: 49 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 106
E T ++KP A + ++ I+ KG +V K + E A + + + P
Sbjct: 2 ERTFLMIKPDAVQRNLIGEVISRIERKGLKLVGGKLMQVPMELAETHYGEHQGK-PF-YN 59
Query: 107 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVN 158
L+ ++ S PV MV+ + A+ H++G +P +A P S+R G+
Sbjct: 60 DLISFITSAPVFAMVVEGEDAVNVSRHIIGSTNPSEAS---PGSIRGDLGLT 108
>1xiq_A Nucleoside diphosphate kinase B; protein structure initiative,
structural genomics, SGPP; 3.05A {Plasmodium falciparum}
SCOP: d.58.6.1
Length = 157
Score = 69.5 bits (171), Expect = 1e-15
Identities = 24/112 (21%), Positives = 47/112 (41%), Gaps = 7/112 (6%)
Query: 49 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 106
E + ++KP V I + ++KG+ ++ K T E E + ++ P
Sbjct: 10 EKSFIMIKPDGVQRGLVGTIIKRFEKKGYKLIAIKMLNPTEEILKEHYKELSDQ-PF-FK 67
Query: 107 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVN 158
LV Y+ GPV MV +++ L+G +P + ++R + +
Sbjct: 68 NLVAYISKGPVVAMVWEGVDMVKQGRKLIGETNPLTSN---TGTIRGDFCLE 116
>3b54_A NDK, NDP kinase, nucleoside diphosphate kinase; alpha/beta
sandwich, ATP-binding, magnesium, metal-B mitochondrion;
3.10A {Saccharomyces cerevisiae}
Length = 161
Score = 69.2 bits (170), Expect = 1e-15
Identities = 26/112 (23%), Positives = 50/112 (44%), Gaps = 7/112 (6%)
Query: 49 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 106
E T VKP V I ++KG+ +V K K + + + + P P
Sbjct: 14 ERTFIAVKPDGVQRGLVSQILSRFEKKGYKLVAIKLVKADDKLLEQHYAEHVGK-PF-FP 71
Query: 107 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVN 158
++V +M SGP+ V + +R+ ++G +P + P ++R +G++
Sbjct: 72 KMVSFMKSGPILATVWEGKDVVRQGRTILGATNPLGSA---PGTIRGDFGID 120
>3evo_A NDP kinase, NDK, nucleoside diphosphate kinase; phosphotransferase
nucleotide binding, ATP-binding, magnesium,
metal-binding; HET: TYD; 1.50A {Acanthamoeba polyphaga
mimivirus} PDB: 3ejm_A* 3emt_A* 3em1_A* 3fc9_A* 3g2x_A*
3ena_A* 3dkd_A* 3ddi_A* 3etm_A* 3evm_A* 3fcv_A* 3b6b_A*
2b8p_A* 3gp9_A* 2b8q_A* 3ee3_A* 3elh_A* 3eic_A* 3evw_A*
3gpa_A* ...
Length = 146
Score = 68.3 bits (168), Expect = 2e-15
Identities = 30/113 (26%), Positives = 47/113 (41%), Gaps = 8/113 (7%)
Query: 49 EYTLALVKPHAFR--HVEDIEQTIQEKGFTIVK-KKTFKFTPEQAAEFFITREERDPVKV 105
+ TL L+KP AF V +I I++K F IV K K + + E+
Sbjct: 7 QRTLVLIKPDAFERSLVAEIMGRIEKKNFKIVSMKFWSKAPRNLIEQHYKEHSEQ-SY-F 64
Query: 106 PRLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVN 158
+MVSGP+ +V AI + L G +P + P ++R +
Sbjct: 65 NDNCDFMVSGPIISIVYEGTDAISKIRRLQGNTNPLASA---PGTIRGDLAND 114
>1xqi_A Nucleoside diphosphate kinase; alpha/beta sandwich, ferredoxin
fold, transferase; HET: PGE; 2.50A {Pyrobaculum
aerophilum} SCOP: d.58.6.1
Length = 195
Score = 60.7 bits (147), Expect = 5e-12
Identities = 38/154 (24%), Positives = 58/154 (37%), Gaps = 36/154 (23%)
Query: 49 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKV- 105
E TL ++KP A V++I ++ G IV K K +PE+ F+ + EE
Sbjct: 16 EKTLLILKPDAVARGLVDEIISRFKKAGLKIVALKMVKASPEEIERFYPSSEEWLQSAGQ 75
Query: 106 ------------------------------PRLVCYMVSGPVRVMVLAKQKAIRRWLHLM 135
LV YM SGP VMVL +A+ L+
Sbjct: 76 KLLKAYQELGIDPRAKIGTDDPVEVGRIIKRNLVKYMTSGPNVVMVLKGNRAVEIVRKLV 135
Query: 136 GPVDPDKAKRIYPLSLRAKYGVNDIMNGSWVLQI 169
GP P A P ++R Y ++ + ++
Sbjct: 136 GPTSPHSAP---PGTIRGDYSIDSPDLAAEEGRV 166
>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 = 40.2 bits (93), Expect = 2e-04
Identities = 27/160 (16%), Positives = 47/160 (29%), Gaps = 39/160 (24%)
Query: 35 DEVPAP-IVQ--NLHCYEYTLALVKPHAFRHVEDIEQTIQEKGFTIVKKKTFKFTPEQAA 91
V NL C L + F+ V D ++ TP++
Sbjct: 251 LNVQNAKAWNAFNLSCK--ILLTTR---FKQVTDFLSAATTTHISLDHHSM-TLTPDEVK 304
Query: 92 EFFITREERDPVKVPRLVCYMVSGPVRVMVLA---KQKAIR--RWLHLMGPVDPDKAKRI 146
+ + P +PR V + P R+ ++A + W H V+ DK I
Sbjct: 305 SLLLKYLDCRPQDLPREVL--TTNPRRLSIIAESIRDGLATWDNWKH----VNCDKLTTI 358
Query: 147 --------YPLSLRAKY--------GVNDIMNGSWVLQIL 170
P R + + I +L ++
Sbjct: 359 IESSLNVLEPAEYRKMFDRLSVFPPSAH-IPTI--LLSLI 395
Score = 26.7 bits (58), Expect = 5.2
Identities = 28/171 (16%), Positives = 47/171 (27%), Gaps = 69/171 (40%)
Query: 46 HCYEYTL-----ALVKPHAFRHVEDIEQTI--QEKGFTIVKKK-----------TFKFTP 87
+ Y+ L A V + V+D+ ++I +E+ I+ K T
Sbjct: 16 YQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQ 75
Query: 88 EQAAEFF---------------ITREERDPVKVPRLVCYMVS---------GPVRVMVLA 123
E+ + F I E+R P + R+ V L
Sbjct: 76 EEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQ 135
Query: 124 KQKAIRRWLHLMGPVDPDKAKRIYPLSLRAK-----YGVNDIMNGS--WVL 167
+R+ L L LR G + GS +
Sbjct: 136 PYLKLRQAL----------------LELRPAKNVLIDG----VLGSGKTWV 166
>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 = 31.6 bits (71), Expect = 0.15
Identities = 25/206 (12%), Positives = 55/206 (26%), Gaps = 63/206 (30%)
Query: 6 VLEEETFLEH------EYEGEEEERSEAESV---------KLDGDEVPA--PIVQN-LHC 47
L+E+ F + + ++E + AE V ++ +V ++ L
Sbjct: 32 QLQEQ-FNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTE 90
Query: 48 YEYT-LALVKPHAF-RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKV 105
+E L HA + T K ++ K + A R
Sbjct: 91 FENCYLEGNDIHALAAKLLQENDTTLVKTKELI--KNYI-----TARIMAKRPFDKKSN- 142
Query: 106 PRLVCYMVSGPVRVMV--------------LAK-----QKAIRRWLHLMGPV------DP 140
L + G +++ L + +
Sbjct: 143 SALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTT 202
Query: 141 DKAKRIYPLSLRAKYGVNDIMNGSWV 166
A++++ L +I+ W+
Sbjct: 203 LDAEKVFTQGL-------NIL--EWL 219
Score = 29.2 bits (65), Expect = 0.73
Identities = 32/186 (17%), Positives = 64/186 (34%), Gaps = 54/186 (29%)
Query: 10 ETFLEHEYEGEEEERSEAESVKLDGDEVPAPIVQN-----LHCYEYT---LALVKPHAFR 61
E + +E + + + E + + +E L ++T L L++ AF
Sbjct: 1686 ENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFE 1745
Query: 62 HVEDIEQTIQEKGFTIVKKKTFKFTPEQAA-----EF--------FITREERDPVKVPRL 108
++ KG I TF A E+ ++ E V+ +
Sbjct: 1746 D-------LKSKGL-IPADATF-------AGHSLGEYAALASLADVMSIE--SLVE---V 1785
Query: 109 VCYMVSGPVR---VMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRA-KYGVNDIMNGS 164
V Y R + V + + R + M ++P + S A +Y V + +
Sbjct: 1786 VFY------RGMTMQVAVPRDELGRSNYGMIAINPGRVAAS--FSQEALQYVVERVGKRT 1837
Query: 165 -WVLQI 169
W+++I
Sbjct: 1838 GWLVEI 1843
Score = 26.9 bits (59), Expect = 5.2
Identities = 17/123 (13%), Positives = 32/123 (26%), Gaps = 27/123 (21%)
Query: 68 QTIQEKG--------FTIVKKKTFKFTPEQAAEFFITREERDPVKVPRLVCYMVSGPVRV 119
Q QE+G + + +A F + + + PV +
Sbjct: 1624 QGSQEQGMGMDLYKTSKAA-QDVW----NRADNHFKDTYGFSILDIVI------NNPVNL 1672
Query: 120 MVL---AKQKAIR-RWLHLMGPVDPDKAKRIYPLSLRAKYGVNDIM-NGSWVLQILTKQK 174
+ K K IR + ++ D + + L T
Sbjct: 1673 TIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSAT--- 1729
Query: 175 EFT 177
+FT
Sbjct: 1730 QFT 1732
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl RED
beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces
cerevisiae}
Length = 1688
Score = 31.0 bits (70), Expect = 0.21
Identities = 23/107 (21%), Positives = 38/107 (35%), Gaps = 32/107 (29%)
Query: 10 ETFLEHEYEGEEEERSEAESVKL-DGDEVPAPIVQNLHCYEYTLALVKPHAFRHVEDIEQ 68
E +E + E E + AE K GD+V I + EY++ L+
Sbjct: 925 EVIVEEDLEPFEASKETAEQFKHQHGDKV--DIFEIPETGEYSVKLL------------- 969
Query: 69 TIQEKGFTIVKKKTFKFTPEQAAE---------FFITREER---DPV 103
KG T+ K +F A + + I+ + DP+
Sbjct: 970 ----KGATLYIPKALRFDRLVAGQIPTGWNAKTYGISDDIISQVDPI 1012
>2vdw_A Vaccinia virus capping enzyme D1 subunit; nucleotidyltransferase,
S-adenosyl-L-methionine, RNA metabolism, mRNA
processing, methyltransferase, poxvirus; HET: SAH; 2.70A
{Vaccinia virus}
Length = 302
Score = 29.4 bits (65), Expect = 0.66
Identities = 19/88 (21%), Positives = 33/88 (37%), Gaps = 9/88 (10%)
Query: 7 LEEETFLEHEYEGEEEERSEAESVKLDGDEVPAPIVQNLHCYEYTLALVKPHAFRHVEDI 66
+++TF+ H+ E E + D V P + EY ++ DI
Sbjct: 179 TDKKTFIIHKNLPSSENYMSVEKIADDRIVVYNPSTMSTPMTEY---II------KKNDI 229
Query: 67 EQTIQEKGFTIVKKKTFKFTPEQAAEFF 94
+ E GF +V F E++ +F
Sbjct: 230 VRVFNEYGFVLVDNVDFATIIERSKKFI 257
>3l8c_A D-alanine--poly(phosphoribitol) ligase subunit 1; structural
genomics, DLTA, ATP-binding, cytoplasm,
nucleotide-binding; 2.41A {Streptococcus pyogenes
serotype M6} PDB: 3lgx_A*
Length = 521
Score = 29.0 bits (66), Expect = 0.87
Identities = 11/65 (16%), Positives = 22/65 (33%), Gaps = 6/65 (9%)
Query: 51 TLALVKPHAFRHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVPRLVC 110
TL + + + TI + + TP A+ + ++ K+P L
Sbjct: 215 TLFALPKELVADFKQLFTTIAQLPVG-----IWTSTP-SFADMAMLSDDFCQAKMPALTH 268
Query: 111 YMVSG 115
+ G
Sbjct: 269 FYFDG 273
>3e7w_A D-alanine--poly(phosphoribitol) ligase subunit 1; DLTA,
non-ribosomal peptide synthetase, NRPS, adenylation
domain, D-alanylation; HET: AMP; 2.28A {Bacillus
subtilis} PDB: 3e7x_A*
Length = 511
Score = 28.2 bits (64), Expect = 1.7
Identities = 10/65 (15%), Positives = 21/65 (32%), Gaps = 6/65 (9%)
Query: 51 TLALVKPHAFRHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVPRLVC 110
TL V A + + + +++ G + TP + + +P
Sbjct: 211 TLHCVTKDAVNKPKVLFEELKKSGLN-----VWTSTP-SFVQMCLMDPGFSQDLLPHADT 264
Query: 111 YMVSG 115
+M G
Sbjct: 265 FMFCG 269
>3fce_A D-alanine--poly(phosphoribitol) ligase subunit 1; DLTA, AMP-forming
domain, adenylation, D-alanine protein ligase, ATP
complex; HET: ATP; 1.90A {Bacillus cereus} PDB: 3fcc_A*
3dhv_A*
Length = 512
Score = 27.9 bits (63), Expect = 1.9
Identities = 9/65 (13%), Positives = 22/65 (33%), Gaps = 6/65 (9%)
Query: 51 TLALVKPHAFRHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVPRLVC 110
TL + +D+ ++++ + TP AE + +P +
Sbjct: 212 TLWAIDKDMIARPKDLFASLEQSDIQVW-----TSTP-SFAEMCLMEASFSESMLPNMKT 265
Query: 111 YMVSG 115
++ G
Sbjct: 266 FLFCG 270
>2db3_A ATP-dependent RNA helicase VASA; DEAD-BOX, protein-RNA complex,
ATPase, riken structural genomics/proteomics
initiative, RSGI; HET: ANP; 2.20A {Drosophila
melanogaster}
Length = 434
Score = 27.1 bits (61), Expect = 3.1
Identities = 10/34 (29%), Positives = 13/34 (38%)
Query: 8 EEETFLEHEYEGEEEERSEAESVKLDGDEVPAPI 41
E F G + VK+ G +VP PI
Sbjct: 22 AIEIFSSGIASGIHFSKYNNIPVKVTGSDVPQPI 55
>3vdg_A Probable glucarate dehydratase; enolase, magnesium binding site,
lyase; 1.90A {Mycobacterium smegmatis str} PDB: 3vfc_A*
Length = 445
Score = 26.6 bits (59), Expect = 4.8
Identities = 10/30 (33%), Positives = 14/30 (46%)
Query: 63 VEDIEQTIQEKGFTIVKKKTFKFTPEQAAE 92
V + I E GF+ +K K F PE+
Sbjct: 198 VAQARRMIDEYGFSAIKLKGGVFAPEEEMA 227
>3e8s_A Putative SAM dependent methyltransferase; NP_744700.1, structural
genomics, joint center for structural genom JCSG; HET:
SAH; 2.10A {Pseudomonas putida KT2440}
Length = 227
Score = 26.3 bits (58), Expect = 5.3
Identities = 5/55 (9%), Positives = 15/55 (27%), Gaps = 2/55 (3%)
Query: 48 YEYTLALVKPHAFRH--VEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREER 100
+ +P + + + G +V + + + + ER
Sbjct: 172 FAGFAGDWQPMPWYFRTLASWLNALDMAGLRLVSLQEPQHPQSAVPQSLLMVAER 226
>3dmy_A Protein FDRA; predicted actyl-COA synthetase, nysgrc, PSI-II, STRU
genomics, protein structure initiative; 2.07A
{Escherichia coli}
Length = 480
Score = 25.9 bits (57), Expect = 8.4
Identities = 6/22 (27%), Positives = 11/22 (50%)
Query: 116 PVRVMVLAKQKAIRRWLHLMGP 137
+ + K +A + L +MGP
Sbjct: 71 TLEDEIQLKTRAREKGLLVMGP 92
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
0.319 0.136 0.396
Gapped
Lambda K H
0.267 0.0786 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,798,316
Number of extensions: 163744
Number of successful extensions: 441
Number of sequences better than 10.0: 1
Number of HSP's gapped: 410
Number of HSP's successfully gapped: 55
Length of query: 178
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 91
Effective length of database: 4,272,666
Effective search space: 388812606
Effective search space used: 388812606
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (24.5 bits)