RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4316
(377 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 = 106 bits (268), Expect = 2e-28
Identities = 53/137 (38%), Positives = 77/137 (56%), Gaps = 4/137 (2%)
Query: 163 EYTLALVKPHAFR--HVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 220
E TL +VKP A + I ++GF I K F+FTPE+A EF+ ER P
Sbjct: 4 ERTLIIVKPDAMEKGALGKILDRFIQEGFQIKALKMFRFTPEKAGEFYYVHRER-PF-FQ 61
Query: 221 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVNDIMNAIYG 280
LV +M SGPV VL + AI+R ++GP D ++A+++ P S+RA++G + NAI+
Sbjct: 62 ELVEFMSSGPVVAAVLEGEDAIKRVREIIGPTDSEEARKVAPNSIRAQFGTDKGKNAIHA 121
Query: 281 SRNEEEAARDIRFFFKD 297
S + E A +I F F
Sbjct: 122 SDSPESAQYEICFIFSG 138
>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 = 101 bits (253), Expect = 5e-26
Identities = 45/137 (32%), Positives = 68/137 (49%), Gaps = 7/137 (5%)
Query: 163 EYTLALVKPHAFR--HVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 220
E TL+++KP A + I + G IV + + A +F+ ER P
Sbjct: 8 ERTLSIIKPDAVAKNVIGQIYSRFENAGLKIVAARMAHLSRADAEKFYAVHAER-PF-FK 65
Query: 221 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVNDIMNAIYG 280
LV +M+SGPV + VL + AI + LMG DP KA+ ++RA + + NA++G
Sbjct: 66 DLVEFMISGPVMIQVLEGEDAILKNRDLMGATDPKKAE---KGTIRADFADSIDANAVHG 122
Query: 281 SRNEEEAARDIRFFFKD 297
S E A +I FFF +
Sbjct: 123 SDAPETARVEIAFFFPE 139
>2hur_A NDK, nucleoside diphosphate kinase, NDP kinase; type II tetramer,
signaling protein,transferase; 1.62A {Escherichia coli}
Length = 142
Score = 100 bits (251), Expect = 8e-26
Identities = 46/137 (33%), Positives = 70/137 (51%), Gaps = 7/137 (5%)
Query: 163 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 220
E T +++KP+A + +I + GF IV K T EQA F+ + + P
Sbjct: 3 ERTFSIIKPNAVAKNVIGNIFARFEAAGFKIVGTKMLHLTVEQARGFYAEHDGK-PF-FD 60
Query: 221 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVNDIMNAIYG 280
LV +M SGP+ V VL + A++R L+G +P A +LRA Y + N +G
Sbjct: 61 GLVEFMTSGPIVVSVLEGENAVQRHRDLLGATNPANAL---AGTLRADYADSLTENGTHG 117
Query: 281 SRNEEEAARDIRFFFKD 297
S + E AAR+I +FF +
Sbjct: 118 SDSVESAAREIAYFFGE 134
>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 = 99.1 bits (248), Expect = 2e-25
Identities = 39/137 (28%), Positives = 67/137 (48%), Gaps = 7/137 (5%)
Query: 163 EYTLALVKPHAFR--HVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 220
E TL+++KP + I +EKG V + + QA F+ + R P
Sbjct: 3 ERTLSIIKPDGLEKGVIGKIISRFEEKGLKPVAIRLQHLSQAQAEGFYAVHKAR-PF-FK 60
Query: 221 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVNDIMNAIYG 280
LV +M+SGPV +MVL + A+ +MG +P +A ++R + + N ++G
Sbjct: 61 DLVQFMISGPVVLMVLEGENAVLANRDIMGATNPAQAA---EGTIRKDFATSIDKNTVHG 117
Query: 281 SRNEEEAARDIRFFFKD 297
S + E A +I +FF++
Sbjct: 118 SDSLENAKIEIAYFFRE 134
>3mpd_A Nucleoside diphosphate kinase; ssgcid, NIH, niaid, SBRI, UW,
emerald biostructures, encepha cuniculi, structural
genomics; 2.08A {Encephalitozoon cuniculi}
Length = 151
Score = 98.8 bits (247), Expect = 3e-25
Identities = 40/150 (26%), Positives = 62/150 (41%), Gaps = 7/150 (4%)
Query: 163 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 220
E T ++KP A R + I Q +EKG + K E + P
Sbjct: 6 ERTFIMIKPDAIKRRLISRIIQRFEEKGLYLAASKCVIPKREVLETHYSHLSSM-PF-FS 63
Query: 221 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVNDIMNAIYG 280
+V M+SG V MV + A+ L+G +P A ++R YGV+ N I+G
Sbjct: 64 EMVEDMMSGMVLAMVWVGKDAVSIGRKLIGETNPQAAS---VGTIRGDYGVSTGKNIIHG 120
Query: 281 SRNEEEAARDIRFFFKDIIIEPSNAMESDI 310
S E A ++I+ + D + S + I
Sbjct: 121 SDCVENAEKEIKLWIGDDVQPVSFFDKEWI 150
>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 = 97.2 bits (243), Expect = 9e-25
Identities = 41/137 (29%), Positives = 60/137 (43%), Gaps = 7/137 (5%)
Query: 163 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 220
E T ++KP V +I + KGF I K + + E A + E+ P P
Sbjct: 2 ERTFVMIKPDGVRRGLVGEILARFERKGFRIAALKLMQISQELAERHYAEHREK-PF-FP 59
Query: 221 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVNDIMNAIYG 280
LV ++ SGPV MVL + +MG P A P ++R + N I+G
Sbjct: 60 GLVRFITSGPVVAMVLEGPGVVAEVRKMMGATHPKDAL---PGTIRGDFATTIDENVIHG 116
Query: 281 SRNEEEAARDIRFFFKD 297
S E+A R+I FF+
Sbjct: 117 SATLEDAQREIALFFRP 133
>1u8w_A Nucleoside diphosphate kinase I; nucleotide diphosphate,
transferase; 2.40A {Arabidopsis thaliana} SCOP: d.58.6.1
Length = 149
Score = 97.2 bits (243), Expect = 1e-24
Identities = 32/150 (21%), Positives = 67/150 (44%), Gaps = 7/150 (4%)
Query: 163 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 220
E T ++KP + ++ ++KGFT+ K A + + +
Sbjct: 2 EQTFIMIKPDGVQRGLIGEVICRFEKKGFTLKGLKLISVERSFAEKHYEDLSSK-SF-FS 59
Query: 221 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVNDIMNAIYG 280
LV Y+VSGPV M+ + + ++G +P ++ P ++R + ++ N I+G
Sbjct: 60 GLVDYIVSGPVVAMIWEGKNVVLTGRKIIGATNPAASE---PGTIRGDFAIDIGRNVIHG 116
Query: 281 SRNEEEAARDIRFFFKDIIIEPSNAMESDI 310
S + E A ++I +F D + +++ +
Sbjct: 117 SDSVESARKEIALWFPDGPVNWQSSVHPWV 146
>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 = 97.3 bits (243), Expect = 2e-24
Identities = 45/137 (32%), Positives = 64/137 (46%), Gaps = 7/137 (5%)
Query: 163 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 220
E T VKP R V +I + + KGF +V K + + E E + ER P
Sbjct: 22 ERTFLAVKPDGVQRRLVGEIVRRFERKGFKLVALKLVQASEELLREHYAELRER-PF-YG 79
Query: 221 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVNDIMNAIYG 280
RLV YM SGPV MV +R L+G +P A P ++R + + N I+G
Sbjct: 80 RLVKYMASGPVVAMVWQGLDVVRTSRALIGATNPADAP---PGTIRGDFCIEVGKNLIHG 136
Query: 281 SRNEEEAARDIRFFFKD 297
S + E A R+I +F+
Sbjct: 137 SDSVESARREIALWFRA 153
>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 = 96.9 bits (242), Expect = 2e-24
Identities = 43/140 (30%), Positives = 65/140 (46%), Gaps = 10/140 (7%)
Query: 163 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 220
E TL ++KP A + +I ++KG IV K E A + + E+ P
Sbjct: 8 ERTLVIIKPDAVVRGLIGEIISRFEKKGLKIVGMKMIWIDRELAEKHYEEHREK-PF-FK 65
Query: 221 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVN---DIMNA 277
L+ Y+ PV VMVL + A+ + G DP A P ++R +G+ I N
Sbjct: 66 ALIDYITKTPVVVMVLEGRYAVEVVRKMAGATDPKDAA---PGTIRGDFGLEVSDAICNV 122
Query: 278 IYGSRNEEEAARDIRFFFKD 297
I+ S ++E A R+I FFK
Sbjct: 123 IHASDSKESAEREISLFFKP 142
>1ehw_A NDPK H4, nucleoside diphosphate kinase; NM23, mitochondrial,
killer-O transferase; 2.40A {Homo sapiens} SCOP:
d.58.6.1
Length = 162
Score = 96.9 bits (242), Expect = 2e-24
Identities = 43/137 (31%), Positives = 65/137 (47%), Gaps = 7/137 (5%)
Query: 163 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 220
E TL VKP R V D+ Q + +GFT+V K + AE + + P P
Sbjct: 25 ERTLVAVKPDGVQRRLVGDVIQRFERRGFTLVGMKMLQAPESVLAEHYQDLRRK-PF-YP 82
Query: 221 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVNDIMNAIYG 280
L+ YM SGPV MV +R ++G D +A P ++R + V+ N I+
Sbjct: 83 ALIRYMSSGPVVAMVWEGYNVVRASRAMIGHTDSAEAA---PGTIRGDFSVHISRNVIHA 139
Query: 281 SRNEEEAARDIRFFFKD 297
S + E A R+I+ +F+
Sbjct: 140 SDSVEGAQREIQLWFQS 156
>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 = 96.9 bits (242), Expect = 2e-24
Identities = 41/137 (29%), Positives = 64/137 (46%), Gaps = 7/137 (5%)
Query: 163 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 220
E T VKP V +I + + KG+ +V K + T EQA + +I + P
Sbjct: 12 ERTFIAVKPDGVQRNLVGEIIKRFENKGYKLVGLKLLQPTEEQAKQHYIDLASK-PF-YS 69
Query: 221 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVNDIMNAIYG 280
LV Y SGP+ MV ++ L+G +P + P ++R + V+ N +G
Sbjct: 70 GLVSYFSSGPIVGMVWEGLGVVKGGRVLLGATNPADSL---PGTIRGDFAVDVGRNVCHG 126
Query: 281 SRNEEEAARDIRFFFKD 297
S + E A R+I F+FK
Sbjct: 127 SDSVESAKREIAFWFKA 143
>1pku_A Nucleoside diphosphate kinase I; RICE, transferase; 2.50A {Oryza
sativa} SCOP: d.58.6.1
Length = 150
Score = 96.5 bits (241), Expect = 3e-24
Identities = 37/150 (24%), Positives = 67/150 (44%), Gaps = 7/150 (4%)
Query: 163 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 220
E + ++KP + DI ++KGF + K A + + ++ P P
Sbjct: 3 EQSFIMIKPDGVQRGLIGDIISRFEKKGFYLRGMKFMNVERSFAQQHYADLSDK-PF-FP 60
Query: 221 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVNDIMNAIYG 280
LV Y++SGPV MV + + ++G P +A P ++RA Y V N I+G
Sbjct: 61 GLVEYIISGPVVAMVWEGKDVVATGRRIIGATRPWEAA---PGTIRADYAVEVGRNVIHG 117
Query: 281 SRNEEEAARDIRFFFKDIIIEPSNAMESDI 310
S + + ++I +F + + E + + I
Sbjct: 118 SDSVDNGKKEIALWFPEGLAEWRSNLHPWI 147
>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 = 96.4 bits (241), Expect = 3e-24
Identities = 39/137 (28%), Positives = 67/137 (48%), Gaps = 7/137 (5%)
Query: 163 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 220
E T +KP V +I + ++KGF +V K + + E + +I ++R P P
Sbjct: 4 ERTFIAIKPDGVQRGLVGEIIKRFEQKGFRLVAMKFLRASEEHLKQHYIDLKDR-PF-FP 61
Query: 221 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVNDIMNAIYG 280
LV YM SGPV MV ++ ++G +P +K P ++R + + N I+G
Sbjct: 62 GLVKYMNSGPVVAMVWEGLNVVKTGRVMLGETNPADSK---PGTIRGDFCIQVGRNIIHG 118
Query: 281 SRNEEEAARDIRFFFKD 297
S + + A ++I +FK
Sbjct: 119 SDSVKSAEKEISLWFKP 135
>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 = 97.5 bits (243), Expect = 3e-24
Identities = 33/150 (22%), Positives = 59/150 (39%), Gaps = 18/150 (12%)
Query: 163 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 220
+ TL +VKP + D+ + G +V K A + ++ +
Sbjct: 27 QKTLCIVKPDGVRRGLIGDVVSRFERVGLKMVAAKMLIVDESLAKKHYLYDDIVFRHSEA 86
Query: 221 ---RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVN----- 272
L+ ++ + PV V+ ++I L G +P A P ++R + +
Sbjct: 87 VWNSLIKFISNSPVFTFVVEGVESIEVVRKLCGATEPKLAI---PGTIRGDFSYHSFKYS 143
Query: 273 -----DIMNAIYGSRNEEEAARDIRFFFKD 297
I N I+ S NE +A R+I +FKD
Sbjct: 144 NEKGFSIYNVIHASANEADAMREIPIWFKD 173
>2vu5_A Nucleoside diphosphate kinase; nucleotide-binding, ATP-binding,
metal-binding, phosphoprotein, nucleotide metabolism,
cytoplasm, magnesium; 2.0A {Bacillus anthracis}
Length = 148
Score = 96.1 bits (240), Expect = 3e-24
Identities = 45/137 (32%), Positives = 69/137 (50%), Gaps = 7/137 (5%)
Query: 163 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 220
E T +VKP + +I ++KGF +V K + TPE A + + EE+ P
Sbjct: 2 EKTFLMVKPDGVQRAFIGEIVARFEKKGFQLVGAKLMQVTPEIAGQHYAEHEEK-PF-FG 59
Query: 221 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVNDIMNAIYG 280
LV ++ SGPV MV + + ++MG P +A P ++R +GV N I+G
Sbjct: 60 ELVDFITSGPVFAMVWQGEGVVDTARNMMGKTRPHEAA---PGTIRGDFGVTVAKNIIHG 116
Query: 281 SRNEEEAARDIRFFFKD 297
S + E A R+I FFK+
Sbjct: 117 SDSLESAEREIGIFFKE 133
>3r9l_A Nucleoside diphosphate kinase; structural genomics, seattle
structural genomics center for infectious disease,
ssgcid, giardiasis; 2.65A {Giardia lamblia}
Length = 155
Score = 95.7 bits (239), Expect = 5e-24
Identities = 39/137 (28%), Positives = 62/137 (45%), Gaps = 7/137 (5%)
Query: 163 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 220
E T +VKP V +I + +GF +V K F + E + R P
Sbjct: 8 ERTFLMVKPDGVQRGLVGEIISRFERRGFKLVAMKFFVPSKNLVEEHYKEHAAR-PF-FA 65
Query: 221 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVNDIMNAIYG 280
L ++ SGPV MV + +MG P ++ P ++R +G++ N I+G
Sbjct: 66 GLCKFLSSGPVCAMVWEGANVVSISRTMMGVTKPAESA---PGTIRGDFGIDVGRNIIHG 122
Query: 281 SRNEEEAARDIRFFFKD 297
S N ++AAR+I +FK
Sbjct: 123 SANLDDAAREIALWFKP 139
>1k44_A Nucleoside diphosphate kinase; nucleoside triphosphate,
transferase; 2.60A {Mycobacterium tuberculosis} SCOP:
d.58.6.1
Length = 136
Score = 95.3 bits (238), Expect = 5e-24
Identities = 38/137 (27%), Positives = 65/137 (47%), Gaps = 6/137 (4%)
Query: 163 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 220
E TL L+KP + + +I I+ KG TI + + E A++ + E + P
Sbjct: 3 ERTLVLIKPDGIERQLIGEIISRIERKGLTIAALQLRTVSAELASQHYAEHEGK-PF-FG 60
Query: 221 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVNDIMNAIYG 280
L+ ++ SGPV ++ +AI L G DP +A P ++R + + N ++G
Sbjct: 61 SLLEFITSGPVVAAIVEGTRAIAAVRQLAGGTDPVQAAA--PGTIRGDFALETQFNLVHG 118
Query: 281 SRNEEEAARDIRFFFKD 297
S + E A R+I +F
Sbjct: 119 SDSAESAQREIALWFPG 135
>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 = 95.7 bits (239), Expect = 6e-24
Identities = 42/137 (30%), Positives = 63/137 (45%), Gaps = 7/137 (5%)
Query: 163 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 220
E T VKP V +I ++KGF +V K T + A + +ER P
Sbjct: 9 ERTFLAVKPDGVARGLVGEIIARYEKKGFVLVGLKQLVPTKDLAESHYAEHKER-PF-FG 66
Query: 221 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVNDIMNAIYG 280
LV ++ SGPV MV + + ++G +P + P S+R +GV+ N I G
Sbjct: 67 GLVSFITSGPVVAMVFEGKGVVASARLMIGVTNPLASA---PGSIRGDFGVDVGRNIIGG 123
Query: 281 SRNEEEAARDIRFFFKD 297
S + E A R+I +FK
Sbjct: 124 SDSVESANREIALWFKP 140
>3l7u_A Nucleoside diphosphate kinase A; ATP-binding, nucleotide-binding,
transferase, tumor suppressor; 2.10A {Homo sapiens}
Length = 172
Score = 96.2 bits (240), Expect = 6e-24
Identities = 37/137 (27%), Positives = 65/137 (47%), Gaps = 7/137 (5%)
Query: 163 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 220
E T +KP V +I + ++KGF +V K + + + E ++ ++R P
Sbjct: 25 ERTFIAIKPDGVQRGLVGEIIKRFEQKGFRLVGLKFMQASEDLLKEHYVDLKDR-PF-FA 82
Query: 221 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVNDIMNAIYG 280
LV YM SGPV MV ++ ++G +P +K P ++R + + N I+G
Sbjct: 83 GLVKYMHSGPVVAMVWEGLNVVKTGRVMLGETNPADSK---PGTIRGDFCIQVGRNIIHG 139
Query: 281 SRNEEEAARDIRFFFKD 297
S + E A ++I +F
Sbjct: 140 SDSVESAEKEIGLWFHP 156
>1w7w_A Nucleoside diphosphate kinase; NDPK3, transferase; 2.80A {Pisum
sativum} SCOP: d.58.6.1
Length = 182
Score = 96.2 bits (240), Expect = 7e-24
Identities = 40/137 (29%), Positives = 60/137 (43%), Gaps = 7/137 (5%)
Query: 163 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 220
E T +KP + +I + KGF +V K T + A + + +ER P
Sbjct: 33 ERTFIAIKPDGVQRGLISEIISRFERKGFKLVGIKVLIPTKQFAQQHYHDLKER-PF-FN 90
Query: 221 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVNDIMNAIYG 280
L ++ SGPV MV + I L+G DP K+ P ++R V N I+G
Sbjct: 91 GLCDFLSSGPVIAMVWEGEGVITYGRKLIGATDPQKSA---PGTIRGDLAVVVGRNIIHG 147
Query: 281 SRNEEEAARDIRFFFKD 297
S E A +I+ +FK
Sbjct: 148 SDGPETAKDEIKLWFKP 164
>3js9_A Nucleoside diphosphate kinase family protein; niaid, ssgcid,
seattle structural genomics center for infect disease,
babesiosis; 2.50A {Babesia bovis}
Length = 156
Score = 95.3 bits (238), Expect = 7e-24
Identities = 32/137 (23%), Positives = 63/137 (45%), Gaps = 7/137 (5%)
Query: 163 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 220
E T +VKP + +I + + KG ++ K T + A+ + +++ P
Sbjct: 10 ERTYIMVKPDGVQRGLIGEILKRFEMKGLKLIAAKFEHPTMDVVAQHYCEHKDK-PF-FK 67
Query: 221 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVNDIMNAIYG 280
L ++ GPV M+ +AI+ +L+G P ++ ++R +GV N ++
Sbjct: 68 DLCDFISHGPVFCMIWEGPEAIKIGRNLVGLTSPVESA---AGTIRGDFGVVKNFNIVHA 124
Query: 281 SRNEEEAARDIRFFFKD 297
S + E+AAR+ +F
Sbjct: 125 SSSAEDAARECALWFTP 141
>1s57_A Nucleoside diphosphate kinase II; transferase; HET: EPE; 1.80A
{Arabidopsis thaliana} SCOP: d.58.6.1 PDB: 1s59_A*
Length = 153
Score = 95.3 bits (238), Expect = 8e-24
Identities = 39/137 (28%), Positives = 62/137 (45%), Gaps = 7/137 (5%)
Query: 163 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 220
E T +VKP V +I ++KGF ++ K F+ E A E + + P
Sbjct: 6 EETYIMVKPDGIQRGLVGEIISRFEKKGFKLIGLKMFQCPKELAEEHYKDLSAK-SF-FP 63
Query: 221 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVNDIMNAIYG 280
L+ Y+ SGPV M + L+G DP +A+ P ++R V N ++G
Sbjct: 64 NLIEYITSGPVVCMAWEGVGVVASARKLIGKTDPLQAE---PGTIRGDLAVQTGRNIVHG 120
Query: 281 SRNEEEAARDIRFFFKD 297
S + E R+I +FK+
Sbjct: 121 SDSPENGKREIGLWFKE 137
>3b54_A NDK, NDP kinase, nucleoside diphosphate kinase; alpha/beta
sandwich, ATP-binding, magnesium, metal-B mitochondrion;
3.10A {Saccharomyces cerevisiae}
Length = 161
Score = 95.0 bits (237), Expect = 1e-23
Identities = 34/137 (24%), Positives = 63/137 (45%), Gaps = 7/137 (5%)
Query: 163 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 220
E T VKP V I ++KG+ +V K K + + + + P P
Sbjct: 14 ERTFIAVKPDGVQRGLVSQILSRFEKKGYKLVAIKLVKADDKLLEQHYAEHVGK-PF-FP 71
Query: 221 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVNDIMNAIYG 280
++V +M SGP+ V + +R+ ++G +P + P ++R +G++ N +G
Sbjct: 72 KMVSFMKSGPILATVWEGKDVVRQGRTILGATNPLGSA---PGTIRGDFGIDLGRNVCHG 128
Query: 281 SRNEEEAARDIRFFFKD 297
S + + A R+I +FK
Sbjct: 129 SDSVDSAEREINLWFKK 145
>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 = 94.1 bits (235), Expect = 2e-23
Identities = 37/138 (26%), Positives = 60/138 (43%), Gaps = 8/138 (5%)
Query: 163 EYTLALVKPHAFR--HVEDIEQTIQEKGFTIVK-KKTFKFTPEQAAEFFITREERDPVKV 219
+ TL L+KP AF V +I I++K F IV K K + + E+
Sbjct: 7 QRTLVLIKPDAFERSLVAEIMGRIEKKNFKIVSMKFWSKAPRNLIEQHYKEHSEQ-SY-F 64
Query: 220 PRLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVNDIMNAIY 279
+MVSGP+ +V AI + L G +P + P ++R + N I+
Sbjct: 65 NDNCDFMVSGPIISIVYEGTDAISKIRRLQGNTNPLASA---PGTIRGDLANDIRENLIH 121
Query: 280 GSRNEEEAARDIRFFFKD 297
S +E+ A +I +F +
Sbjct: 122 ASDSEDSAVDEISIWFPE 139
>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 = 94.6 bits (236), Expect = 2e-23
Identities = 37/137 (27%), Positives = 65/137 (47%), Gaps = 7/137 (5%)
Query: 163 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 220
E T ++KP A + ++ I+ KG +V K + E A + + + P
Sbjct: 2 ERTFLMIKPDAVQRNLIGEVISRIERKGLKLVGGKLMQVPMELAETHYGEHQGK-PF-YN 59
Query: 221 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVNDIMNAIYG 280
L+ ++ S PV MV+ + A+ H++G +P +A P S+R G+ N I+G
Sbjct: 60 DLISFITSAPVFAMVVEGEDAVNVSRHIIGSTNPSEAS---PGSIRGDLGLTVGRNIIHG 116
Query: 281 SRNEEEAARDIRFFFKD 297
S + E A R+I +F +
Sbjct: 117 SDSLESAEREINLWFNE 133
>1nb2_A Nucleoside diphosphate kinase; bacillus halodenitrifians,
transferase; 2.20A {Virgibacillus halodenitrificans}
SCOP: d.58.6.1
Length = 150
Score = 94.1 bits (235), Expect = 2e-23
Identities = 38/137 (27%), Positives = 58/137 (42%), Gaps = 7/137 (5%)
Query: 163 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 220
E T +VKP V ++ + + KG + K + + AA + P
Sbjct: 3 ERTFLMVKPDGVQRNLVGEVVKRFESKGLKLAGAKLMVISKDGAAAHYAELGGG-PF-FG 60
Query: 221 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVNDIMNAIYG 280
LV SGPV MV A ++G +P A P ++R +GV+ NAI+G
Sbjct: 61 GLVGGATSGPVFAMVWEGLNAAATARQILGATNPSDAA---PGTIRGDFGVSAGRNAIHG 117
Query: 281 SRNEEEAARDIRFFFKD 297
S + AA++I FF
Sbjct: 118 SDSAGSAAKEIGAFFGG 134
>1xiq_A Nucleoside diphosphate kinase B; protein structure initiative,
structural genomics, SGPP; 3.05A {Plasmodium falciparum}
SCOP: d.58.6.1
Length = 157
Score = 93.8 bits (234), Expect = 3e-23
Identities = 32/137 (23%), Positives = 60/137 (43%), Gaps = 7/137 (5%)
Query: 163 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 220
E + ++KP V I + ++KG+ ++ K T E E + ++ P
Sbjct: 10 EKSFIMIKPDGVQRGLVGTIIKRFEKKGYKLIAIKMLNPTEEILKEHYKELSDQ-PF-FK 67
Query: 221 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVNDIMNAIYG 280
LV Y+ GPV MV +++ L+G +P + ++R + + N I+G
Sbjct: 68 NLVAYISKGPVVAMVWEGVDMVKQGRKLIGETNPLTSN---TGTIRGDFCLEVSKNVIHG 124
Query: 281 SRNEEEAARDIRFFFKD 297
S + A ++I +FK
Sbjct: 125 SDSVASANKEINIWFKA 141
>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 = 91.9 bits (229), Expect = 2e-22
Identities = 47/139 (33%), Positives = 66/139 (47%), Gaps = 9/139 (6%)
Query: 163 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVP 220
E T +VKP + DI ++ KG +V K + E A E + E++ P
Sbjct: 9 ERTFVMVKPDGVQRGLIGDIVTRLETKGLKMVGGKFMRIDEELAHEHYAEHEDK-PF-FD 66
Query: 221 RLVCYMVSGPVRVMVLAKQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVNDIMNAIYG 280
LV ++ SGPV MV A R+ LMG D A P ++R YG + N I+G
Sbjct: 67 GLVSFITSGPVFAMVWEGADATRQVRQLMGATDAQDAA---PGTIRGDYGNDLGHNLIHG 123
Query: 281 SRNEEEAA--RDIRFFFKD 297
S +E+E A R+I FF D
Sbjct: 124 SDHEDEGANEREIALFFDD 142
>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 = 83.0 bits (205), Expect = 7e-19
Identities = 47/178 (26%), Positives = 72/178 (40%), Gaps = 46/178 (25%)
Query: 163 EYTLALVKPHAF--RHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKV- 219
E TL ++KP A V++I ++ G IV K K +PE+ F+ + EE
Sbjct: 16 EKTLLILKPDAVARGLVDEIISRFKKAGLKIVALKMVKASPEEIERFYPSSEEWLQSAGQ 75
Query: 220 ------------------------------PRLVCYMVSGPVRVMVLAKQKAIRRWLHLM 249
LV YM SGP VMVL +A+ L+
Sbjct: 76 KLLKAYQELGIDPRAKIGTDDPVEVGRIIKRNLVKYMTSGPNVVMVLKGNRAVEIVRKLV 135
Query: 250 GPVDPDKAKRIYPLSLRAKYGVND----------IMNAIYGSRNEEEAARDIRFFFKD 297
GP P A P ++R Y ++ + N ++ S + EA R+IRF+F++
Sbjct: 136 GPTSPHSAP---PGTIRGDYSIDSPDLAAEEGRVVFNLVHASDSPSEAEREIRFWFRE 190
>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 = 51.4 bits (122), Expect = 3e-07
Identities = 58/408 (14%), Positives = 113/408 (27%), Gaps = 108/408 (26%)
Query: 26 KTENRIKDDDNEDEEEKQNYMERGPHSFSKTGAWSADNFDG---DVADLRHSEF------ 76
KTE R E+++ + F+K + + +LR ++
Sbjct: 99 KTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGV 158
Query: 77 ----RSW-------FYRQCLCMYHGIEYVYNGLNPIKVSKWPLPPPL--PIWSLSGSSSG 123
++W Y+ M I + + + P + + L
Sbjct: 159 LGSGKTWVALDVCLSYKVQCKMDFKIFW-------LNLKNCNSPETVLEMLQKLLYQIDP 211
Query: 124 SVT-LPDSTPNIVQERSEAESVK-------------LDGDEVPAP-IVQ--NLHCYEYTL 166
+ T D + NI ++ L V NL C L
Sbjct: 212 NWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSC--KIL 269
Query: 167 ALVKPHAFRHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVPRLVCYM 226
+ F+ V D ++ TP++ + + P +PR V
Sbjct: 270 LTTR---FKQVTDFLSAATTTHISLDHHSM-TLTPDEVKSLLLKYLDCRPQDLPREVL-- 323
Query: 227 VSGPVRVMVLA---KQKAIR--RWLHLMGPVDPDKAKRI--------YPLSLRAKY---- 269
+ P R+ ++A + W H V+ DK I P R +
Sbjct: 324 TTNPRRLSIIAESIRDGLATWDNWKH----VNCDKLTTIIESSLNVLEPAEYRKMFDRLS 379
Query: 270 ----GVN---DIMNAIYGSRNEEEAARDIRFFFKDIIIEPSNAMESDISCEPSSNSFLAH 322
+ +++ I+ + + + K S + +P ++
Sbjct: 380 VFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHK----------YSLVEKQPKESTISIP 429
Query: 323 KIYLREFVYPTLQKGLAELVRMKPAH-----SYEWFVNWLLENDPFSP 365
IYL L+ L + H Y + ++D P
Sbjct: 430 SIYLE------LKVKLENEYAL---HRSIVDHYNIPKTF--DSDDLIP 466
Score = 33.7 bits (76), Expect = 0.13
Identities = 45/263 (17%), Positives = 76/263 (28%), Gaps = 94/263 (35%)
Query: 160 HCYEYTL-----ALVKPHAFRHVEDIEQTI--QEKGFTIVKKK-----------TFKFTP 201
+ Y+ L A V + V+D+ ++I +E+ I+ K T
Sbjct: 16 YQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQ 75
Query: 202 EQAAEFF---------------ITREERDPVKVPRLVCYMVS---------GPVRVMVLA 237
E+ + F I E+R P + R+ V L
Sbjct: 76 EEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQ 135
Query: 238 KQKAIRRWLHLMGPVDPDKAKRIYPLSLRAKYGVNDIMNAIYG------SRNEEEAARD- 290
+R+ L L LR V I G + +
Sbjct: 136 PYLKLRQAL----------------LELRPAKNV-----LIDGVLGSGKTWVALDVCLSY 174
Query: 291 ---IRFFFK------------DIIIEPSNAMESDISCEPSSNSFLAHKIYLREFVYPTLQ 335
+ FK + ++E + I +S S + I LR ++Q
Sbjct: 175 KVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLR---IHSIQ 231
Query: 336 KGLAELVRMKPAHSYEWFVNWLL 358
L L++ KP + N LL
Sbjct: 232 AELRRLLKSKP------YENCLL 248
Score = 32.5 bits (73), Expect = 0.27
Identities = 16/98 (16%), Positives = 28/98 (28%), Gaps = 26/98 (26%)
Query: 268 KYGVNDIMNAIYGSRNEEEAARDIRFFFKDIIIEPSNAMES----DISCEPSSNSFLAHK 323
+Y DI+ S E+ + F KD+ P + + I + S
Sbjct: 15 QYQYKDIL-----SVFEDAFVDN--FDCKDVQDMPKSILSKEEIDHIIMSKDAVS----G 63
Query: 324 IYLREFVYPTLQKGLAELVRMKPAHSYEWFVNWLLEND 361
L + K + FV +L +
Sbjct: 64 TLR-----------LFWTLLSKQEEMVQKFVEEVLRIN 90
>3g36_A Protein DPY-30 homolog; X-type four-helix bundle, nucleus, nuclear
protein; 1.20A {Homo sapiens}
Length = 55
Score = 45.0 bits (107), Expect = 5e-07
Identities = 13/38 (34%), Positives = 23/38 (60%)
Query: 325 YLREFVYPTLQKGLAELVRMKPAHSYEWFVNWLLENDP 362
YL + V P L +G+A L + +P + E+ ++LL+N
Sbjct: 12 YLDQTVVPILLQGMAVLAKERPPNPIEFLASYLLKNKA 49
>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 = 37.7 bits (87), Expect = 0.007
Identities = 21/106 (19%), Positives = 39/106 (36%), Gaps = 19/106 (17%)
Query: 262 PLSLRAKYGVNDIMNAIYGSRNEEEAARDIRFFFKDIIIEPSNAMESDISCEPSSN---- 317
PL+L +G + + + A ++ F I+ EP+ +D EP++
Sbjct: 8 PLTL--SHG--SLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADD--EPTTPAELV 61
Query: 318 -SFLAHKIYLREFVYPTLQKGLAELVRMKPAHSYEWFV-NWLLEND 361
FL Y+ V P+ +++ F +L ND
Sbjct: 62 GKFLG---YVSSLVEPSKVGQFDQVLN----LCLTEFENCYLEGND 100
Score = 29.2 bits (65), Expect = 2.6
Identities = 37/270 (13%), Positives = 74/270 (27%), Gaps = 93/270 (34%)
Query: 173 AFRHV-EDIEQTIQEK-GFTIV-------KKKTFKFTP---------------EQAAEFF 208
A + V + ++ GF+I+ T F E +
Sbjct: 1641 AAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGK 1700
Query: 209 ITREERDPVKVPRLVCYMVSGPVRVM---------VLAKQKAIRRWLHLMGPVDPDK--- 256
+ E+ Y ++ + +KA L G + D
Sbjct: 1701 LKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFA 1760
Query: 257 --------AKRIYPLSLRAKYGVNDIMNAIY-----GSRNEEEAARDI--RFFFKDIIIE 301
A L + V I + + G + RD R + I I
Sbjct: 1761 GHSLGEYAA-------LASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAIN 1813
Query: 302 PSNAMESDISCEPSSNSFLAHKIYLR--EFV----Y--PTLQ-------KGLAELVRMKP 346
P + + S E + ++ ++ R V Y Q + L + +
Sbjct: 1814 PG-RVAASFSQE--ALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNV-- 1868
Query: 347 AHSYEWFVNWLLENDPFSPKLKPCDLVKIP 376
+N++ KL+ D++++
Sbjct: 1869 -------LNFI--------KLQKIDIIELQ 1883
Score = 28.5 bits (63), Expect = 5.4
Identities = 30/256 (11%), Positives = 62/256 (24%), Gaps = 87/256 (33%)
Query: 89 HG-IEYVYNGLNPIKVSKWPLPPPLPIWSLSGSSSGSV-------TLPDSTPNIVQE--- 137
HG +E+V +P + + S LP+ T +
Sbjct: 13 HGSLEHV-----------LLVPTAS--FFI-----ASQLQEQFNKILPEPTEGFAADDEP 54
Query: 138 RSEAESV---------KLDGDEVPA--PIVQN-LHCYEYT-LALVKPHAF-RHVEDIEQT 183
+ AE V ++ +V ++ L +E L HA + T
Sbjct: 55 TTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDT 114
Query: 184 IQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVPRLVCYMVSGPVRVMV-------- 235
K ++ K + A R L + G +++
Sbjct: 115 TLVKTKELI--KNYI-----TARIMAKRPFDKKSN-SALFRAVGEGNAQLVAIFGGQGNT 166
Query: 236 ------LAK-----QKAIRRWLHLMGPV------DPDKAKRIYPLSLRAKYGVNDIMNAI 278
L + + A++++ L +I+ +
Sbjct: 167 DDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGL-------NILEWL 219
Query: 279 YGSRNEEEAARDIRFF 294
D +
Sbjct: 220 ----ENPSNTPDKDYL 231
>3bh7_B Protein XRP2; protein-protein complex, GTPase activating protein
and GTPase, retinitis pigmentosa, GTP-binding,
lipoprotein, myristate; HET: GDP; 1.90A {Homo sapiens}
PDB: 3bh6_B* 2bx6_A
Length = 352
Score = 31.0 bits (69), Expect = 0.57
Identities = 29/174 (16%), Positives = 56/174 (32%), Gaps = 32/174 (18%)
Query: 127 LPDSTPNIVQERSEAESVKLDGDEVPAPI--VQNLHCYEYTLALVKPHAFRHVEDIEQTI 184
+ D P E +A V + + PI Q + + +V + + + I
Sbjct: 197 VQDYVPIPTTEELKAVRVSTEANRSIVPISRGQRQKSSDESCLVVLFAGDYTIANARKLI 256
Query: 185 QE---KGFTIVKKKTFKFTPEQAAEFFITREERDPVKVPRLVCYMVSGPVRVMVLAKQKA 241
E KGF +V+ K E A F + P + + GPV + A
Sbjct: 257 DEMVGKGFFLVQTKEVSMKAEDAQRVFREK-------APDFLPLLNKGPVIALEFNGDGA 309
Query: 242 IRRWLHLMGPVDPDKAKRIYPLSLRAKYGVNDIMNAIYGSRNEEEAARDIRFFF 295
+ ++ + ++ S ++E A+ D+ F+
Sbjct: 310 VEVCQLIVNEIFNG--------------------TKMFVSESKETASGDVDSFY 343
>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 = 29.8 bits (68), Expect = 1.7
Identities = 11/65 (16%), Positives = 22/65 (33%), Gaps = 6/65 (9%)
Query: 165 TLALVKPHAFRHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVPRLVC 224
TL + + + TI + + TP A+ + ++ K+P L
Sbjct: 215 TLFALPKELVADFKQLFTTIAQLPVG-----IWTSTP-SFADMAMLSDDFCQAKMPALTH 268
Query: 225 YMVSG 229
+ G
Sbjct: 269 FYFDG 273
>2bwn_A 5-aminolevulinate synthase; tetrapyrrole biosynthesis, heme
biosynthesis, pyridoxal PHOS dependent, transferase,
acyltransferase; HET: LLP; 2.1A {Rhodobacter capsulatus}
SCOP: c.67.1.4 PDB: 2bwo_A* 2bwp_A*
Length = 401
Score = 29.5 bits (67), Expect = 1.9
Identities = 7/31 (22%), Positives = 15/31 (48%), Gaps = 1/31 (3%)
Query: 322 HKIYLREFVYPTLQKGLAEL-VRMKPAHSYE 351
+ +Y++ +PT+ +G L P H +
Sbjct: 354 YGVYVQPINFPTVPRGTERLRFTPSPVHDLK 384
>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 = 28.6 bits (65), Expect = 3.3
Identities = 10/65 (15%), Positives = 21/65 (32%), Gaps = 6/65 (9%)
Query: 165 TLALVKPHAFRHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVPRLVC 224
TL V A + + + +++ G + TP + + +P
Sbjct: 211 TLHCVTKDAVNKPKVLFEELKKSGLN-----VWTSTP-SFVQMCLMDPGFSQDLLPHADT 264
Query: 225 YMVSG 229
+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 = 28.6 bits (65), Expect = 3.7
Identities = 9/65 (13%), Positives = 22/65 (33%), Gaps = 6/65 (9%)
Query: 165 TLALVKPHAFRHVEDIEQTIQEKGFTIVKKKTFKFTPEQAAEFFITREERDPVKVPRLVC 224
TL + +D+ ++++ + TP AE + +P +
Sbjct: 212 TLWAIDKDMIARPKDLFASLEQSDIQVW-----TSTP-SFAEMCLMEASFSESMLPNMKT 265
Query: 225 YMVSG 229
++ G
Sbjct: 266 FLFCG 270
>3ei3_A DNA damage-binding protein 1; UV-damage, DDB, nucleotide excision
repair, xeroderma pigmentosum, cytoplasm, DNA repair;
HET: DNA PG4; 2.30A {Homo sapiens} PDB: 3ei1_A* 3ei2_A*
3ei4_A* 4a0l_A* 3e0c_A* 3i7k_A* 3i7h_A* 3i7l_A* 3i7n_A*
3i7o_A* 3i7p_A* 3i89_A* 3i8c_A* 3i8e_A* 2b5l_A 2b5m_A
2hye_A* 4a11_A* 4a0k_C* 4a0a_A* ...
Length = 1158
Score = 27.6 bits (60), Expect = 9.5
Identities = 20/140 (14%), Positives = 40/140 (28%), Gaps = 11/140 (7%)
Query: 65 DGDVADLRHSEFRSWFYRQCLCMYHGIEYVYNGLNPIKVSKWPLPPPLPIWSLSGSSSGS 124
D V DL + + NG+ + + LP +W L +
Sbjct: 379 DMCVVDLERQGQGQLVTCSGAFKEGSLRIIRNGIGIHEHASIDLPGIKGLWPLRSDPNRE 438
Query: 125 ------VTLPDSTPNIVQERSEAESVKLDGDEVPAPIVQNLHCYEYTLALVKPHAFRHV- 177
++ T ++ E E +L G + L + + R V
Sbjct: 439 TDDTLVLSFVGQTRVLMLNGEEVEETELMGFVDDQQTFFCGNVAHQQLIQITSASVRLVS 498
Query: 178 EDIEQTIQE----KGFTIVK 193
++ + + E + I
Sbjct: 499 QEPKALVSEWKEPQAKNISV 518
>2v5y_A Receptor-type tyrosine-protein phosphatase MU; membrane, hydrolase,
glycoprotein, receptor protei tyrosine phosphatase, cell
adhesion; HET: NAG; 3.10A {Homo sapiens}
Length = 731
Score = 27.4 bits (60), Expect = 9.5
Identities = 21/116 (18%), Positives = 35/116 (30%), Gaps = 9/116 (7%)
Query: 65 DGDVADLRHSEFRSWFYRQCLC-MYH--GIEYVYNGLNPIKVSKWPLPPPLPIWSLSGSS 121
+G A L + + C+ Y GL + V P PIW++SG
Sbjct: 58 EGQRAHLLLPQLKEN-DTHCIDFHYFVSSKSNSPPGLLNVYVKVNNGPLGNPIWNISGDP 116
Query: 122 S-----GSVTLPDSTPNIVQERSEAESVKLDGDEVPAPIVQNLHCYEYTLALVKPH 172
+ + + PN Q E + G + H T ++
Sbjct: 117 TRTWNRAELAISTFWPNFYQVIFEVITSGHQGYLAIDEVKVLGHPCTRTPHFLRIQ 172
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
0.318 0.136 0.417
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: 6,050,816
Number of extensions: 369494
Number of successful extensions: 934
Number of sequences better than 10.0: 1
Number of HSP's gapped: 876
Number of HSP's successfully gapped: 49
Length of query: 377
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 282
Effective length of database: 4,049,298
Effective search space: 1141902036
Effective search space used: 1141902036
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 58 (26.0 bits)