RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy498
(189 letters)
>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 = 0.002
Identities = 37/193 (19%), Positives = 71/193 (36%), Gaps = 59/193 (30%)
Query: 17 EILLKDLFIG--------NSVKLFSRILKIV------DY--GDRI-------LKIVDYGD 53
E++ K F+G + V F ++L + Y G+ I L+ D
Sbjct: 59 ELVGK--FLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTL 116
Query: 54 RYTKSYLESTNYQCTIAFLRPHANDSKSELFQDLINHGFEFINLLMVEFN---------E 104
TK +++ I RP S S LF+ + + L+ F E
Sbjct: 117 VKTKELIKNY-ITARIMAKRPFDKKSNSALFRAVGEGNAQ----LVAIFGGQGNTDDYFE 171
Query: 105 EIKRIMSQQEYTARI-----PISSMLNGPV-------IVFQLRGVNAVQKLQDVVGPADR 152
E++ + Q Y + + L+ + VF +G+N ++ L++ P++
Sbjct: 172 ELRDL--YQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFT-QGLNILEWLEN---PSNT 225
Query: 153 --EEALSNYPHSL 163
++ L + P S
Sbjct: 226 PDKDYLLSIPISC 238
Score = 35.4 bits (81), Expect = 0.010
Identities = 35/197 (17%), Positives = 57/197 (28%), Gaps = 80/197 (40%)
Query: 21 KDLFIGNSVKLFSRILKIVD------YGDRILKIVD------------YGDRYTKSYLES 62
DL+ + K + D YG IL IV + +
Sbjct: 1633 MDLY--KTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRE---- 1686
Query: 63 TNYQCTIAFLRPHANDSKS---ELFQDL--------INHGFEFIN--------LLMVEFN 103
NY A + D K ++F+++ ++ L ++E
Sbjct: 1687 -NY---SAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEK- 1741
Query: 104 EEIKRIMSQQ---------------EYTA------RIPISSMLNGPVIVFQLRGVNAVQK 142
+ + EY A + I S++ +VF RG
Sbjct: 1742 -AAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVE---VVFY-RG----MT 1792
Query: 143 LQDVVGPADREEALSNY 159
+Q V P D E SNY
Sbjct: 1793 MQVAV-PRD-ELGRSNY 1807
Score = 28.5 bits (63), Expect = 1.6
Identities = 21/131 (16%), Positives = 41/131 (31%), Gaps = 46/131 (35%)
Query: 71 FLR-------PHANDSKSELFQDLINHGFEFINLLMVEFNEEIKRIMSQQEYTARIPISS 123
FL + + +DL+ + F ++I+ IP+
Sbjct: 420 FLPVASPFHSHLLVPASDLINKDLVKNNVSF-------NAKDIQ-----------IPVYD 461
Query: 124 MLNGPVIVFQLRGV--NAVQKLQD--VVGPADREEALSNYPHSLRARYSHL------GAS 173
+G LR + + +++ D + P E + + +H+ GAS
Sbjct: 462 TFDGSD----LRVLSGSISERIVDCIIRLPVKWETT-------TQFKATHILDFGPGGAS 510
Query: 174 NLYVATEETVQ 184
L V T
Sbjct: 511 GLGVLTHRNKD 521
>2z14_A EF-hand domain-containing family member C2; DUF1126, human EF-hand
domain, alternative splicing, polymorphism, signaling
protein; 1.68A {Homo sapiens} PDB: 2z13_A
Length = 133
Score = 34.0 bits (78), Expect = 0.009
Identities = 12/61 (19%), Positives = 25/61 (40%), Gaps = 12/61 (19%)
Query: 3 VKKNKIFLHRTHCDEIL-LKDLFIGNSVKLFSRILKIVDYGDRILKIVDYGDRYTKSYLE 61
+++++I L D+ + +G V + R KI D D +T+++L
Sbjct: 68 IRRHRITLPPPDEDQFYTVYHFNVGTEVVFYGRTFKIYD-----------CDAFTRNFLR 116
Query: 62 S 62
Sbjct: 117 K 117
>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 = 32.5 bits (74), Expect = 0.045
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 3/49 (6%)
Query: 121 ISSMLNGPVIVFQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARYSH 169
+ M +GP +V L+G AV+ ++ +VGP A P ++R YS
Sbjct: 109 VKYMTSGPNVVMVLKGNRAVEIVRKLVGPTSPHSAP---PGTIRGDYSI 154
>3ztp_A Nucleoside diphosphate kinase; transferase; HET: GOL; 1.37A
{Aquifex aeolicus} PDB: 3zto_A* 3ztq_A 3ztr_A 3zts_A
Length = 142
Score = 31.7 bits (73), Expect = 0.063
Identities = 17/44 (38%), Positives = 32/44 (72%)
Query: 124 MLNGPVIVFQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARY 167
M +GPV+ L G +A++++++++GP D EEA P+S+RA++
Sbjct: 67 MSSGPVVAAVLEGEDAIKRVREIIGPTDSEEARKVAPNSIRAQF 110
>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 = 31.6 bits (72), Expect = 0.081
Identities = 12/49 (24%), Positives = 27/49 (55%), Gaps = 3/49 (6%)
Query: 121 ISSMLNGPVIVFQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARYSH 169
I + N PV F + GV +++ ++ + G + + A+ P ++R +S+
Sbjct: 92 IKFISNSPVFTFVVEGVESIEVVRKLCGATEPKLAI---PGTIRGDFSY 137
>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 = 30.6 bits (70), Expect = 0.16
Identities = 12/48 (25%), Positives = 26/48 (54%), Gaps = 3/48 (6%)
Query: 121 ISSMLNGPVIVFQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARYS 168
+S + +GPV G +A ++++ ++G D ++A P ++R Y
Sbjct: 69 VSFITSGPVFAMVWEGADATRQVRQLMGATDAQDAA---PGTIRGDYG 113
>2vu5_A Nucleoside diphosphate kinase; nucleotide-binding, ATP-binding,
metal-binding, phosphoprotein, nucleotide metabolism,
cytoplasm, magnesium; 2.0A {Bacillus anthracis}
Length = 148
Score = 30.2 bits (69), Expect = 0.21
Identities = 10/48 (20%), Positives = 21/48 (43%), Gaps = 3/48 (6%)
Query: 121 ISSMLNGPVIVFQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARYS 168
+ + +GPV +G V ++++G EA P ++R +
Sbjct: 62 VDFITSGPVFAMVWQGEGVVDTARNMMGKTRPHEAA---PGTIRGDFG 106
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 30.3 bits (67), Expect = 0.24
Identities = 8/34 (23%), Positives = 14/34 (41%), Gaps = 11/34 (32%)
Query: 60 LESTNYQCTIAFLRPHANDSKSELFQDLINHGFE 93
L+++ L+ +A+DS L I E
Sbjct: 25 LQAS--------LKLYADDSAPAL---AIKATME 47
>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 = 29.8 bits (68), Expect = 0.26
Identities = 10/48 (20%), Positives = 21/48 (43%), Gaps = 3/48 (6%)
Query: 121 ISSMLNGPVIVFQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARYS 168
+S + +GPV+ G V + ++G + + P S+R +
Sbjct: 69 VSFITSGPVVAMVFEGKGVVASARLMIGVTNPLASA---PGSIRGDFG 113
>1nb2_A Nucleoside diphosphate kinase; bacillus halodenitrifians,
transferase; 2.20A {Virgibacillus halodenitrificans}
SCOP: d.58.6.1
Length = 150
Score = 29.8 bits (68), Expect = 0.29
Identities = 10/48 (20%), Positives = 21/48 (43%), Gaps = 3/48 (6%)
Query: 121 ISSMLNGPVIVFQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARYS 168
+ +GPV G+NA + ++G + +A P ++R +
Sbjct: 63 VGGATSGPVFAMVWEGLNAAATARQILGATNPSDAA---PGTIRGDFG 107
>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 = 29.8 bits (68), Expect = 0.33
Identities = 13/48 (27%), Positives = 22/48 (45%), Gaps = 3/48 (6%)
Query: 121 ISSMLNGPVIVFQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARYS 168
IS + + PV + G +AV + ++G + EA P S+R
Sbjct: 62 ISFITSAPVFAMVVEGEDAVNVSRHIIGSTNPSEAS---PGSIRGDLG 106
>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 = 29.4 bits (67), Expect = 0.37
Identities = 11/48 (22%), Positives = 26/48 (54%), Gaps = 3/48 (6%)
Query: 121 ISSMLNGPVIVFQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARYS 168
+ + +GPV+ L G V +++ ++G ++AL P ++R ++
Sbjct: 62 VRFITSGPVVAMVLEGPGVVAEVRKMMGATHPKDAL---PGTIRGDFA 106
>1xiq_A Nucleoside diphosphate kinase B; protein structure initiative,
structural genomics, SGPP; 3.05A {Plasmodium falciparum}
SCOP: d.58.6.1
Length = 157
Score = 29.5 bits (67), Expect = 0.38
Identities = 8/48 (16%), Positives = 23/48 (47%), Gaps = 3/48 (6%)
Query: 121 ISSMLNGPVIVFQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARYS 168
++ + GPV+ GV+ V++ + ++G + + ++R +
Sbjct: 70 VAYISKGPVVAMVWEGVDMVKQGRKLIGETNPLTSN---TGTIRGDFC 114
>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 = 29.5 bits (67), Expect = 0.39
Identities = 10/48 (20%), Positives = 25/48 (52%), Gaps = 3/48 (6%)
Query: 121 ISSMLNGPVIVFQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARYS 168
+ M +GPV+ +G++ V+ + ++G + +A P ++R +
Sbjct: 82 VKYMASGPVVAMVWQGLDVVRTSRALIGATNPADAP---PGTIRGDFC 126
>3js9_A Nucleoside diphosphate kinase family protein; niaid, ssgcid,
seattle structural genomics center for infect disease,
babesiosis; 2.50A {Babesia bovis}
Length = 156
Score = 29.5 bits (67), Expect = 0.40
Identities = 9/48 (18%), Positives = 20/48 (41%), Gaps = 3/48 (6%)
Query: 121 ISSMLNGPVIVFQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARYS 168
+ +GPV G A++ +++VG E+ ++R +
Sbjct: 70 CDFISHGPVFCMIWEGPEAIKIGRNLVGLTSPVESA---AGTIRGDFG 114
>1pku_A Nucleoside diphosphate kinase I; RICE, transferase; 2.50A {Oryza
sativa} SCOP: d.58.6.1
Length = 150
Score = 29.4 bits (67), Expect = 0.44
Identities = 12/48 (25%), Positives = 24/48 (50%), Gaps = 3/48 (6%)
Query: 121 ISSMLNGPVIVFQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARYS 168
+ +++GPV+ G + V + ++G EA P ++RA Y+
Sbjct: 63 VEYIISGPVVAMVWEGKDVVATGRRIIGATRPWEAA---PGTIRADYA 107
>3r9l_A Nucleoside diphosphate kinase; structural genomics, seattle
structural genomics center for infectious disease,
ssgcid, giardiasis; 2.65A {Giardia lamblia}
Length = 155
Score = 29.5 bits (67), Expect = 0.45
Identities = 10/48 (20%), Positives = 19/48 (39%), Gaps = 3/48 (6%)
Query: 121 ISSMLNGPVIVFQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARYS 168
+ +GPV G N V + ++G E+ P ++R +
Sbjct: 68 CKFLSSGPVCAMVWEGANVVSISRTMMGVTKPAESA---PGTIRGDFG 112
>3b54_A NDK, NDP kinase, nucleoside diphosphate kinase; alpha/beta
sandwich, ATP-binding, magnesium, metal-B mitochondrion;
3.10A {Saccharomyces cerevisiae}
Length = 161
Score = 29.5 bits (67), Expect = 0.45
Identities = 9/48 (18%), Positives = 24/48 (50%), Gaps = 3/48 (6%)
Query: 121 ISSMLNGPVIVFQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARYS 168
+S M +GP++ G + V++ + ++G + + P ++R +
Sbjct: 74 VSFMKSGPILATVWEGKDVVRQGRTILGATNPLGSA---PGTIRGDFG 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 = 29.0 bits (66), Expect = 0.47
Identities = 10/48 (20%), Positives = 24/48 (50%), Gaps = 3/48 (6%)
Query: 121 ISSMLNGPVIVFQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARYS 168
+ M +GPV+ G+N V+ + ++G + ++ P ++R +
Sbjct: 64 VKYMNSGPVVAMVWEGLNVVKTGRVMLGETNPADSK---PGTIRGDFC 108
>1ehw_A NDPK H4, nucleoside diphosphate kinase; NM23, mitochondrial,
killer-O transferase; 2.40A {Homo sapiens} SCOP:
d.58.6.1
Length = 162
Score = 29.5 bits (67), Expect = 0.47
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 3/48 (6%)
Query: 121 ISSMLNGPVIVFQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARYS 168
I M +GPV+ G N V+ + ++G D EA P ++R +S
Sbjct: 85 IRYMSSGPVVAMVWEGYNVVRASRAMIGHTDSAEAA---PGTIRGDFS 129
>3l7u_A Nucleoside diphosphate kinase A; ATP-binding, nucleotide-binding,
transferase, tumor suppressor; 2.10A {Homo sapiens}
Length = 172
Score = 29.1 bits (66), Expect = 0.51
Identities = 10/48 (20%), Positives = 24/48 (50%), Gaps = 3/48 (6%)
Query: 121 ISSMLNGPVIVFQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARYS 168
+ M +GPV+ G+N V+ + ++G + ++ P ++R +
Sbjct: 85 VKYMHSGPVVAMVWEGLNVVKTGRVMLGETNPADSK---PGTIRGDFC 129
>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 = 28.7 bits (65), Expect = 0.74
Identities = 13/48 (27%), Positives = 24/48 (50%), Gaps = 3/48 (6%)
Query: 121 ISSMLNGPVIVFQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARYS 168
I + PV+V L G AV+ ++ + G D ++A P ++R +
Sbjct: 68 IDYITKTPVVVMVLEGRYAVEVVRKMAGATDPKDAA---PGTIRGDFG 112
>1w7w_A Nucleoside diphosphate kinase; NDPK3, transferase; 2.80A {Pisum
sativum} SCOP: d.58.6.1
Length = 182
Score = 28.8 bits (65), Expect = 0.77
Identities = 9/48 (18%), Positives = 21/48 (43%), Gaps = 3/48 (6%)
Query: 121 ISSMLNGPVIVFQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARYS 168
+ +GPVI G + + ++G D +++ P ++R +
Sbjct: 93 CDFLSSGPVIAMVWEGEGVITYGRKLIGATDPQKSA---PGTIRGDLA 137
>1s57_A Nucleoside diphosphate kinase II; transferase; HET: EPE; 1.80A
{Arabidopsis thaliana} SCOP: d.58.6.1 PDB: 1s59_A*
Length = 153
Score = 28.7 bits (65), Expect = 0.77
Identities = 12/48 (25%), Positives = 22/48 (45%), Gaps = 3/48 (6%)
Query: 121 ISSMLNGPVIVFQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARYS 168
I + +GPV+ GV V + ++G D +A P ++R +
Sbjct: 66 IEYITSGPVVCMAWEGVGVVASARKLIGKTDPLQAE---PGTIRGDLA 110
>1u8w_A Nucleoside diphosphate kinase I; nucleotide diphosphate,
transferase; 2.40A {Arabidopsis thaliana} SCOP: d.58.6.1
Length = 149
Score = 28.3 bits (64), Expect = 0.85
Identities = 9/48 (18%), Positives = 23/48 (47%), Gaps = 3/48 (6%)
Query: 121 ISSMLNGPVIVFQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARYS 168
+ +++GPV+ G N V + ++G + + P ++R ++
Sbjct: 62 VDYIVSGPVVAMIWEGKNVVLTGRKIIGATNPAASE---PGTIRGDFA 106
>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 = 28.3 bits (64), Expect = 0.98
Identities = 9/48 (18%), Positives = 25/48 (52%), Gaps = 3/48 (6%)
Query: 121 ISSMLNGPVIVFQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARYS 168
+S +GP++ G+ V+ + ++G + ++L P ++R ++
Sbjct: 72 VSYFSSGPIVGMVWEGLGVVKGGRVLLGATNPADSL---PGTIRGDFA 116
>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 = 28.2 bits (64), Expect = 1.1
Identities = 10/48 (20%), Positives = 23/48 (47%), Gaps = 3/48 (6%)
Query: 121 ISSMLNGPVIVFQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARYS 168
M++GP+I G +A+ K++ + G + + P ++R +
Sbjct: 68 CDFMVSGPIISIVYEGTDAISKIRRLQGNTNPLASA---PGTIRGDLA 112
>3mpd_A Nucleoside diphosphate kinase; ssgcid, NIH, niaid, SBRI, UW,
emerald biostructures, encepha cuniculi, structural
genomics; 2.08A {Encephalitozoon cuniculi}
Length = 151
Score = 27.9 bits (63), Expect = 1.5
Identities = 10/48 (20%), Positives = 22/48 (45%), Gaps = 3/48 (6%)
Query: 121 ISSMLNGPVIVFQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARYS 168
+ M++G V+ G +AV + ++G + + A ++R Y
Sbjct: 66 VEDMMSGMVLAMVWVGKDAVSIGRKLIGETNPQAAS---VGTIRGDYG 110
>1k44_A Nucleoside diphosphate kinase; nucleoside triphosphate,
transferase; 2.60A {Mycobacterium tuberculosis} SCOP:
d.58.6.1
Length = 136
Score = 27.5 bits (62), Expect = 1.6
Identities = 7/34 (20%), Positives = 16/34 (47%), Gaps = 3/34 (8%)
Query: 121 ISSMLNGPVIVFQLRGVNAVQKLQDVVG---PAD 151
+ + +GPV+ + G A+ ++ + G P
Sbjct: 63 LEFITSGPVVAAIVEGTRAIAAVRQLAGGTDPVQ 96
>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 = 28.7 bits (63), Expect = 1.6
Identities = 16/121 (13%), Positives = 36/121 (29%), Gaps = 42/121 (34%)
Query: 6 NKIFLHRTHCDEILLKDL-FIGNSVK-----------LFSRILKIVDYGDRILKIVDYGD 53
+FL D F+ ++ + + + ++ Y I +
Sbjct: 494 RMVFL-----------DFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYE 542
Query: 54 RYTKSYLESTNYQCTIAFLRPHANDSKSELFQDLINHGFEFINLLMVEFNEEIKRIMSQQ 113
R + L+ FL ++LI ++ +LL + E + I +
Sbjct: 543 RLVNAILD---------FLPKIE--------ENLICS--KYTDLLRIALMAEDEAIFEEA 583
Query: 114 E 114
Sbjct: 584 H 584
>2hur_A NDK, nucleoside diphosphate kinase, NDP kinase; type II tetramer,
signaling protein,transferase; 1.62A {Escherichia coli}
Length = 142
Score = 27.5 bits (62), Expect = 1.7
Identities = 18/47 (38%), Positives = 28/47 (59%), Gaps = 3/47 (6%)
Query: 121 ISSMLNGPVIVFQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARY 167
+ M +GP++V L G NAVQ+ +D++G + AL +LRA Y
Sbjct: 63 VEFMTSGPIVVSVLEGENAVQRHRDLLGATNPANAL---AGTLRADY 106
>3cqv_A Nuclear receptor subfamily 1 group D member 2; reverb beta, heme,
NR1D2, DNA-binding, metal-binding, nucleus, repressor,
transcription; HET: HEM; 1.90A {Homo sapiens} PDB:
2v7c_A 2v0v_A
Length = 199
Score = 27.7 bits (62), Expect = 2.0
Identities = 24/99 (24%), Positives = 44/99 (44%), Gaps = 17/99 (17%)
Query: 75 HANDSKSELFQDLINHGFEFINLLMVEFNEEIKRIMSQQEY---TARIPISSMLNGPVIV 131
+D S DL+N FEF + +S +E TA + +S+ +G
Sbjct: 90 SVDDLHSMGAGDLLNSMFEFSEK-LNALQ------LSDEEMSLFTAVVLVSADRSG---- 138
Query: 132 FQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARYSHL 170
+ VN+V+ LQ+ + A R + N+P+ + ++ L
Sbjct: 139 --IENVNSVEALQETLIRALRTLIMKNHPNE-ASIFTKL 174
>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 = 27.1 bits (61), Expect = 2.5
Identities = 14/34 (41%), Positives = 21/34 (61%), Gaps = 3/34 (8%)
Query: 124 MLNGPVIVFQLRGVNAVQKLQDVVG---PADREE 154
M++GPV++ L G NAV +D++G PA E
Sbjct: 66 MISGPVVLMVLEGENAVLANRDIMGATNPAQAAE 99
>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 = 26.7 bits (60), Expect = 3.2
Identities = 14/47 (29%), Positives = 29/47 (61%), Gaps = 3/47 (6%)
Query: 121 ISSMLNGPVIVFQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARY 167
+ M++GPV++ L G +A+ K +D++G D ++A ++RA +
Sbjct: 68 VEFMISGPVMIQVLEGEDAILKNRDLMGATDPKKAE---KGTIRADF 111
>3n00_A REV-ERBA-alpha; reverba ncorid1, anti-parallel B-sheet,
transcription regula; 2.60A {Homo sapiens}
Length = 245
Score = 27.1 bits (60), Expect = 3.9
Identities = 19/99 (19%), Positives = 42/99 (42%), Gaps = 17/99 (17%)
Query: 75 HANDSKSELFQDLINHGFEFINLLMVEFNEEIKRIMSQQEY---TARIPISSMLNGPVIV 131
+ + DL++ F+F + ++++E TA + +S+ +G
Sbjct: 135 SLQELGAMGMGDLLSAMFDFSEK-LNSLA------LTEEELGLFTAVVLVSADRSG---- 183
Query: 132 FQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARYSHL 170
+ +V++LQ+ + A R L N P +R++ L
Sbjct: 184 --MENSASVEQLQETLLRALRALVLKNRPLE-TSRFTKL 219
>3aal_A Probable endonuclease 4; endoiv, DNA repair, base excision repair,
TIM barrel, DNA DA endonuclease, hydrolase,
metal-binding; 1.60A {Geobacillus kaustophilus} PDB:
1xp3_A
Length = 303
Score = 26.7 bits (59), Expect = 5.0
Identities = 12/69 (17%), Positives = 23/69 (33%), Gaps = 10/69 (14%)
Query: 25 IGNSVKLFSRILKIVDYGDRILKIVDYGDRYTKSYLESTNYQCTIAFLRP---------- 74
G + + + I+ V Y D++ D + Y ++ +
Sbjct: 158 CGRTFEELAYIIDGVAYNDKLSVCFDTCHTHDAGYDIVNDFDGVLEEFDRIIGLGRLKVL 217
Query: 75 HANDSKSEL 83
H NDSK+
Sbjct: 218 HINDSKNPR 226
>2p54_A PPAR-alpha, peroxisome proliferator-activated receptor alpha; PPAR
alpha GW735 SRC1 agonist HDLC, transcription; HET: 735;
1.79A {Homo sapiens} SCOP: a.123.1.1 PDB: 3fei_A*
1i7g_A* 3kdu_A* 3kdt_A* 2rew_A* 1kkq_A* 3g8i_A* 3et1_A*
2znn_A* 3sp6_A* 1k7l_A* 2npa_A* 2xyj_A* 2xyw_A* 2xyx_A*
2q5g_A* 3gwx_A* 3dy6_A* 1gwx_A* 3peq_A* ...
Length = 267
Score = 26.0 bits (57), Expect = 7.9
Identities = 18/103 (17%), Positives = 32/103 (31%), Gaps = 17/103 (16%)
Query: 71 FLRPHANDSKSELFQDLINHGFEFINLLMVEFNEEIKRIMSQQEY---TARIPISSMLNG 127
F+ S + F D++ F+F + + A I G
Sbjct: 137 FITREFLKSLRKPFCDIMEPKFDFAMK-FNALE------LDDSDISLFVAAIICCGDRPG 189
Query: 128 PVIVFQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARYSHL 170
L V ++K+Q+ + R SN+P + L
Sbjct: 190 ------LLNVGHIEKMQEGIVHVLRLHLQSNHPDD-IFLFPKL 225
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
0.321 0.138 0.392
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: 2,891,292
Number of extensions: 167382
Number of successful extensions: 378
Number of sequences better than 10.0: 1
Number of HSP's gapped: 374
Number of HSP's successfully gapped: 55
Length of query: 189
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 101
Effective length of database: 4,244,745
Effective search space: 428719245
Effective search space used: 428719245
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)