RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 031818
(152 letters)
>3ilv_A Glutamine-dependent NAD(+) synthetase; protein structure initiative
II(PSI II), NYSGXRC, structural genomics; 1.79A
{Cytophaga hutchinsonii atcc 33406}
Length = 634
Score = 116 bits (293), Expect = 2e-31
Identities = 27/111 (24%), Positives = 47/111 (42%), Gaps = 4/111 (3%)
Query: 2 KQLDEVDMGMTYEELSVYGRLRKIFHCGPVSMFKNLCYRWGARLTPSEVAEKVKHFFKYY 61
Q DE D+ M Y+ L+ R PV ++ L T +E VK FF+ +
Sbjct: 525 TQTDERDL-MPYDVLARIERKAIKERLSPVQVYTALLTEGP--YTKNEFKYWVKKFFRLW 581
Query: 62 SINRHKMTVLTPSYHAESYSPEDNRFDLRQFLYNARWPYQFRKIDELVKEL 112
SIN+ K L PS+H + ++ + + L + + + +D+
Sbjct: 582 SINQWKRERLAPSFHMDDFNIDPRSWYRFPILSSG-FAKELNDLDQEGHHH 631
>3sdb_A Glutamine-dependent NAD(+) synthetase; glutamine-amidotransferase,
glutaminase, glutamine-dependent synthetase, ligase;
2.00A {Mycobacterium tuberculosis} PDB: 3seq_A* 3sez_A*
3szg_A* 3dla_A* 3syt_A*
Length = 680
Score = 104 bits (261), Expect = 6e-27
Identities = 22/130 (16%), Positives = 41/130 (31%), Gaps = 27/130 (20%)
Query: 3 QLDEVDMG-MTYEELSVYGRLRKIFHCGPVSMFKNLCYRWG----------------ARL 45
Q E +G ++ S++ LR F P + + W
Sbjct: 556 QSSEAKVGPFALQDFSLFQVLRYGF--RPSKIAFLAWHAWNDAERGNWPPGFPKSERPSY 613
Query: 46 TPSEVAEK----VKHFFKYYSINRHKMTVLTPSYHAESYSPEDNRFDLRQFLYNARWPYQ 101
+ +E+ V+ F+ + R + H + SP R D R + +
Sbjct: 614 SLAEIRHWLQIFVQRFYSFSQFKRSALPNGPKVSHGGALSP---RGDWRAPSDMSARIW- 669
Query: 102 FRKIDELVKE 111
+ID V +
Sbjct: 670 LDQIDREVPK 679
>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 = 47.5 bits (112), Expect = 3e-07
Identities = 27/119 (22%), Positives = 44/119 (36%), Gaps = 15/119 (12%)
Query: 1 MKQLDEVDMGMTYEELSVYGRLRKIFHCGPVSMFKNLCYRWGARLTPSEVAEKVKHFFKY 60
+ L+ + ++ LSV+ I P L W + S+V V KY
Sbjct: 363 LNVLEPAEYRKMFDRLSVFPPSAHI----PT---ILLSLIWFD-VIKSDVMVVVNKLHKY 414
Query: 61 YSINRH--KMTVLTPSYHAESYSPEDNRFDL-RQFL--YNARWPYQFRKIDELVKELDG 114
+ + + T+ PS + E +N + L R + YN P F D + LD
Sbjct: 415 SLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNI--PKTFDSDDLIPPYLDQ 471
Score = 39.5 bits (91), Expect = 2e-04
Identities = 25/154 (16%), Positives = 46/154 (29%), Gaps = 46/154 (29%)
Query: 2 KQLDEVDMGMTYEELSVYGRLRKIFHCGPVSMFKNLCYRWGARLTPSEVAEKVKHFFK-- 59
+++D + ++F W E+ V+ F +
Sbjct: 49 EEIDHI-----IMSKDAVSGTLRLF--------------WTLLSKQEEM---VQKFVEEV 86
Query: 60 ----Y-YSINRHKMTVLTPSYHAESYSPEDNRF--DLRQFL-YNARWPYQFRKIDELVKE 111
Y + ++ K PS Y + +R D + F YN + K+ + + E
Sbjct: 87 LRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLE 146
Query: 112 LDGEKVPFGESSDHEKMGTTLDGGGGMG--VIAA 143
L K +DG G G +A
Sbjct: 147 LRPAK------------NVLIDGVLGSGKTWVAL 168
>1kqp_A NAD+ synthase, NH(3)-dependent NAD(+) synthetase, SPOR; ligase,
amidotransferase, ATP pyrophosphatase, NAD-adenylate;
HET: ADJ; 1.03A {Bacillus subtilis} SCOP: c.26.2.1 PDB:
1fyd_A* 1ifx_A* 1ee1_A* 1ih8_A* 1nsy_A* 2nsy_A* 2pzb_A
2pza_A* 2pz8_A
Length = 271
Score = 35.6 bits (83), Expect = 0.003
Identities = 14/66 (21%), Positives = 29/66 (43%), Gaps = 24/66 (36%)
Query: 3 QLDEVDMGMTYEELSVYGRLRKIFHCGPVSMFKNLCYRWGARLTPSEVAEKVKHFFKYYS 62
Q DE ++G++Y+E+ Y +++ ++V+E ++ K YS
Sbjct: 218 QSDETELGISYDEIDDYLEGKEV---------------------SAKVSEALE---KRYS 253
Query: 63 INRHKM 68
+ HK
Sbjct: 254 MTEHKR 259
>3q4g_A NH(3)-dependent NAD(+) synthetase; structural genomics, csgid,
center for structural genomics O infectious diseases,
alpha beta; 2.40A {Vibrio cholerae}
Length = 279
Score = 34.7 bits (80), Expect = 0.007
Identities = 11/67 (16%), Positives = 25/67 (37%), Gaps = 24/67 (35%)
Query: 3 QLDEVDMGMTYEELSVYGRLRKIFHCGPVSMFKNLCYRWGARLTPSEVAEKVKHFFKYYS 62
+ DE + +TYE++ + + + P+EV++++ Y
Sbjct: 230 KADEAALNLTYEQIDDFLEGKAV---------------------PAEVSQRLVAI---YH 265
Query: 63 INRHKMT 69
+HK
Sbjct: 266 ATQHKRQ 272
>1wxi_A NH(3)-dependent NAD(+) synthetase; NADE, E.coli, ligase; HET: AMP;
1.70A {Escherichia coli} SCOP: c.26.2.1 PDB: 1wxf_A
1wxg_A* 1wxh_A* 1wxe_A* 3hmq_A*
Length = 275
Score = 32.7 bits (75), Expect = 0.030
Identities = 13/65 (20%), Positives = 24/65 (36%), Gaps = 24/65 (36%)
Query: 5 DEVDMGMTYEELSVYGRLRKIFHCGPVSMFKNLCYRWGARLTPSEVAEKVKHFFKYYSIN 64
DEV +G+TY+ + Y + + P +VA ++++ Y
Sbjct: 223 DEVALGVTYDNIDDYLEGKNV---------------------PQQVARTIENW---YLKT 258
Query: 65 RHKMT 69
HK
Sbjct: 259 EHKRR 263
>3dpi_A NAD+ synthetase; ssgcid, decode, structural genomics, PSI, protein
structure initiative; 2.20A {Burkholderia pseudomallei}
Length = 285
Score = 32.7 bits (75), Expect = 0.034
Identities = 15/66 (22%), Positives = 22/66 (33%), Gaps = 24/66 (36%)
Query: 3 QLDEVDMGMTYEELSVYGRLRKIFHCGPVSMFKNLCYRWGARLTPSEVAEKVKHFFKYYS 62
+ DE G+TYE++ + + + VAE V F Y
Sbjct: 230 RPDEHAYGITYEQIDDFLEGKPM---------------------DDAVAETVLRF---YD 265
Query: 63 INRHKM 68
RHK
Sbjct: 266 ATRHKR 271
>3fiu_A NH(3)-dependent NAD(+) synthetase; rossman fold, adenine nucleotide
alpha hydrolase-like, ATP- binding, ligase,
nucleotide-binding; HET: AMP; 1.85A {Francisella
tularensis subsp}
Length = 249
Score = 32.1 bits (74), Expect = 0.040
Identities = 14/74 (18%), Positives = 33/74 (44%), Gaps = 25/74 (33%)
Query: 3 QLDEVDMGMTYEELSVYGRLRKIFHCGPVSMFKNLCYRWGARLTPSEVAEKVKHFFKYYS 62
Q DE +MG+TY+E+ + +++ ++ E++ +++
Sbjct: 200 QTDEDEMGVTYQEIDDFLDGKQV---------------------SAKALERIN---FWHN 235
Query: 63 INRHKMTV-LTPSY 75
+ HK + LTP++
Sbjct: 236 RSHHKRKLALTPNF 249
>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 = 32.3 bits (73), Expect = 0.049
Identities = 21/94 (22%), Positives = 34/94 (36%), Gaps = 24/94 (25%)
Query: 74 SYHAES-----YSPEDNRFDLRQFLYNARWPYQFRKIDELVKE-LDGEKVP--------- 118
S++A+ Y D DLR + R +D +++ + E
Sbjct: 449 SFNAKDIQIPVYDTFDGS-DLRVLSGSIS----ERIVDCIIRLPVKWETTTQFKATHILD 503
Query: 119 FG--ESSDHEKMGTTLDGGGGMGVIAAGS--GNP 148
FG +S + G G+ VI AG+ NP
Sbjct: 504 FGPGGASGLGVLTHRNKDGTGVRVIVAGTLDINP 537
Score = 26.6 bits (58), Expect = 4.1
Identities = 25/145 (17%), Positives = 41/145 (28%), Gaps = 62/145 (42%)
Query: 6 EVDMGMTYEELSVYGRLRKIFHCGPVSMFKNLCYRWGARLTPSEVAEKV-----KHFFKY 60
E MGM +L Y S+ A+ V HF
Sbjct: 1628 EQGMGM---DL--YKT--------------------------SKAAQDVWNRADNHFKDT 1656
Query: 61 Y--SI------NRHKMTVLTPSYHAESYSPEDNRFDLRQFLYNA----RWPYQFRKIDEL 108
Y SI N +T+ + +R+ Y+A K +++
Sbjct: 1657 YGFSILDIVINNPVNLTIHFGGEKGKR---------IRE-NYSAMIFETIVDGKLKTEKI 1706
Query: 109 VKELDGE--KVPFGESSDHEKMGTT 131
KE++ F S+ + T
Sbjct: 1707 FKEINEHSTSYTF--RSEKGLLSAT 1729
>3l5l_A Xenobiotic reductase A; TIM barrel, oxidoreductase; HET: BU3 FMN;
1.03A {Pseudomonas putida} PDB: 3l5m_A* 3n19_B* 3n16_A*
3l68_A* 3l67_A* 3l65_A* 3l66_A* 3n14_A* 2h8z_A* 2h90_A*
2h8x_A*
Length = 363
Score = 28.6 bits (65), Expect = 0.75
Identities = 14/47 (29%), Positives = 19/47 (40%), Gaps = 7/47 (14%)
Query: 76 HAESYSPEDNRFDL----RQFLYNARWPYQFRKIDELVKELDGEKVP 118
AE+ + N+ DL R L + W Y K EL E +P
Sbjct: 309 LAEAAL-QANQLDLVSVGRAHLADPHWAYFAAK--ELGVEKASWTLP 352
>3iz5_V 60S ribosomal protein L17 (L22P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_V
Length = 171
Score = 27.6 bits (61), Expect = 0.95
Identities = 5/47 (10%), Positives = 12/47 (25%)
Query: 104 KIDELVKELDGEKVPFGESSDHEKMGTTLDGGGGMGVIAAGSGNPKA 150
K+ + E V + + + G +G +
Sbjct: 38 KLPLGKAKRYLEDVIAHKQAIPFRRYCGGVGRTAQAKSRHSNGQGRW 84
>1yb1_A 17-beta-hydroxysteroid dehydrogenase type XI; short chain
dehydrogenase, HUM structural genomics, structural
genomics consortium, SGC; HET: AE2; 1.95A {Homo sapiens}
SCOP: c.2.1.2
Length = 272
Score = 27.2 bits (61), Expect = 2.1
Identities = 10/43 (23%), Positives = 15/43 (34%), Gaps = 5/43 (11%)
Query: 33 MFKNLCYRWGARLTPSEVAEKVKHFFKYYSINRHKMTVLTPSY 75
KN G L P EV ++ + I + + PS
Sbjct: 220 FIKNPSTSLGPTLEPEEVVNRL-----MHGILTEQKMIFIPSS 257
>3hgj_A Chromate reductase; TIM barrel, oxidoreductase; HET: FMN; 2.00A
{Thermus scotoductus} PDB: 3hf3_A*
Length = 349
Score = 27.1 bits (61), Expect = 2.1
Identities = 7/31 (22%), Positives = 12/31 (38%), Gaps = 5/31 (16%)
Query: 76 HAESYSPEDNRFDL----RQFLYNARWPYQF 102
AE+ + DL R L + +P +
Sbjct: 302 QAETLL-QAGSADLVLLGRVLLRDPYFPLRA 331
>1z41_A YQJM, probable NADH-dependent flavin oxidoreductase YQJ; FMN,
beta-alpha-barrel; HET: FMN; 1.30A {Bacillus subtilis}
SCOP: c.1.4.1 PDB: 1z42_A* 1z44_A* 1z48_A*
Length = 338
Score = 27.1 bits (61), Expect = 2.2
Identities = 7/31 (22%), Positives = 12/31 (38%), Gaps = 5/31 (16%)
Query: 76 HAESYSPEDNRFDL----RQFLYNARWPYQF 102
AE ++ R DL R+ L + +
Sbjct: 291 MAEEIL-QNGRADLIFIGRELLRDPFFARTA 320
>3gr7_A NADPH dehydrogenase; flavin, FMN, beta-alpha-barrel,
oxidoreductase, flavoprotein; HET: FMN; 2.30A
{Geobacillus kaustophilus} PDB: 3gr8_A*
Length = 340
Score = 27.1 bits (61), Expect = 2.3
Identities = 11/31 (35%), Positives = 14/31 (45%), Gaps = 5/31 (16%)
Query: 76 HAESYSPEDNRFDL----RQFLYNARWPYQF 102
AE ++ R DL R+ L N WPY
Sbjct: 291 QAEEIL-QNGRADLVFLGRELLRNPYWPYAA 320
>2qgh_A Diaminopimelate decarboxylase; lyase; HET: PLP LYS; 2.30A
{Helicobacter pylori} PDB: 3c5q_A*
Length = 425
Score = 26.7 bits (60), Expect = 3.0
Identities = 10/44 (22%), Positives = 16/44 (36%), Gaps = 12/44 (27%)
Query: 99 PYQ--FRKIDELVKELDGEKVPFGESSDHEKMGTTLDGGGGMGV 140
P +K+ ++ K L + D GGG+GV
Sbjct: 215 PIIEASQKVAKIAKSLIALGIDL----------RFFDVGGGIGV 248
>3n2b_A Diaminopimelate decarboxylase; LYSA, lyase, structural genom center
for structural genomics of infectious diseases, CSGI;
1.80A {Vibrio cholerae}
Length = 441
Score = 26.7 bits (60), Expect = 3.2
Identities = 11/44 (25%), Positives = 17/44 (38%), Gaps = 12/44 (27%)
Query: 99 PYQ--FRKIDELVKELDGEKVPFGESSDHEKMGTTLDGGGGMGV 140
P+ ++ L+ L E + LD GGG+GV
Sbjct: 234 PFIDATDRLLALIDSLKAEGIHI----------RHLDVGGGLGV 267
>3kru_A NADH:flavin oxidoreductase/NADH oxidase; homotetramer, dimer of
dimers, TIM barrel, thermophilic, OLD enzyme; HET: FMN;
1.60A {Thermoanaerobacter pseudethanolicus AT} PDB:
3krz_A*
Length = 343
Score = 26.7 bits (60), Expect = 3.7
Identities = 9/30 (30%), Positives = 11/30 (36%), Gaps = 5/30 (16%)
Query: 76 HAESYSPEDNRFDL----RQFLYNARWPYQ 101
AE + R DL R+ L N W
Sbjct: 291 LAEEIL-SNERADLVALGRELLRNPYWVLH 319
>3vab_A Diaminopimelate decarboxylase 1; structural genomics, seattle
structural genomics center for infectious disease,
ssgcid; HET: LLP; 2.10A {Brucella melitensis BV}
Length = 443
Score = 26.3 bits (59), Expect = 4.5
Identities = 13/44 (29%), Positives = 19/44 (43%), Gaps = 12/44 (27%)
Query: 99 PYQ--FRKIDELVKELDGEKVPFGESSDHEKMGTTLDGGGGMGV 140
P+ F + ELVKEL + +D GGG+G+
Sbjct: 231 PFDNAFALMAELVKELQADGHNI----------RHVDVGGGLGI 264
>2nn6_G Exosome complex exonuclease RRP40; RNA, exosome, PM/SCL,
phosphorolytic, hydrolase/transferase complex; 3.35A
{Homo sapiens} SCOP: b.40.4.5 b.84.4.2 d.51.1.1
Length = 289
Score = 26.3 bits (57), Expect = 5.0
Identities = 9/41 (21%), Positives = 14/41 (34%)
Query: 112 LDGEKVPFGESSDHEKMGTTLDGGGGMGVIAAGSGNPKAGH 152
L GE++ E D E G ++ + A G
Sbjct: 43 LPGEELLLPEQEDAEGPGGAVERPLSLNARACSRVRVVCGP 83
>2nrk_A Hypothetical protein GRPB; UPF0157, PFAM04229, glutamate-rich
protein, enterococcus FAE PSI-2, protein structure
initiative; 1.65A {Enterococcus faecalis} SCOP:
d.218.1.14
Length = 173
Score = 25.8 bits (56), Expect = 5.3
Identities = 6/24 (25%), Positives = 11/24 (45%)
Query: 94 YNARWPYQFRKIDELVKELDGEKV 117
Y W QF + + +K++ E
Sbjct: 11 YQPAWVEQFEEEAQALKQILKENC 34
>2z6i_A Trans-2-enoyl-ACP reductase II; fatty acid synthesis, antibiotics,
oxidoreductase, flavoprotein; HET: FMN; 1.70A
{Streptococcus pneumoniae} PDB: 2z6j_A*
Length = 332
Score = 26.1 bits (58), Expect = 5.6
Identities = 5/15 (33%), Positives = 9/15 (60%)
Query: 136 GGMGVIAAGSGNPKA 150
GG+G+I G+ +
Sbjct: 36 GGLGIIGGGNAPKEV 50
>1umk_A B5R, NADH-cytochrome B5 reductase; flavoprotein, beta barrel,
FAD-binding domain, NADH-binding domain, oxidoreductase;
HET: FAD; 1.75A {Homo sapiens} SCOP: b.43.4.2 c.25.1.1
PDB: 1ndh_A* 1i7p_A* 1ib0_A* 1qx4_A*
Length = 275
Score = 25.9 bits (57), Expect = 6.1
Identities = 8/32 (25%), Positives = 12/32 (37%)
Query: 7 VDMGMTYEELSVYGRLRKIFHCGPVSMFKNLC 38
V+ M + L + CGP M + C
Sbjct: 227 VNEEMIRDHLPPPEEEPLVLMCGPPPMIQYAC 258
>1o7x_A Citrate synthase; lyase, tricarboxylic acid cycle; 2.7A {Sulfolobus
solfataricus} SCOP: a.103.1.1
Length = 377
Score = 25.6 bits (57), Expect = 7.3
Identities = 5/45 (11%), Positives = 12/45 (26%), Gaps = 6/45 (13%)
Query: 48 SEVAEKVKHFFKYYSINRHKMTVLTPS------YHAESYSPEDNR 86
EV ++V + +L E+++
Sbjct: 73 YEVPQEVLDTIYLMPKEADAIGLLEVGTAALASIDKNFKWKENDK 117
>3bo9_A Putative nitroalkan dioxygenase; TM0800, structural genomics center
for structural genomics, JCSG, protein structure INI
PSI-2; HET: MSE 2PE; 2.71A {Thermotoga maritima MSB8}
Length = 326
Score = 25.7 bits (57), Expect = 8.0
Identities = 6/15 (40%), Positives = 10/15 (66%)
Query: 136 GGMGVIAAGSGNPKA 150
GG+G+I +G+ P
Sbjct: 50 GGLGIIGSGAMKPDD 64
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 0.137 0.425
Gapped
Lambda K H
0.267 0.0818 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,525,667
Number of extensions: 147883
Number of successful extensions: 521
Number of sequences better than 10.0: 1
Number of HSP's gapped: 514
Number of HSP's successfully gapped: 38
Length of query: 152
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 67
Effective length of database: 4,328,508
Effective search space: 290010036
Effective search space used: 290010036
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 (21.7 bits)
S2: 53 (24.0 bits)