RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9339
(258 letters)
>3tig_A TTL protein; ATP-grAsp, ligase, tubulin; 2.50A {Silurana} PDB:
3tii_A* 3tin_A*
Length = 380
Score = 166 bits (421), Expect = 2e-49
Identities = 42/155 (27%), Positives = 71/155 (45%), Gaps = 9/155 (5%)
Query: 33 GGKKFDLRLYVLVTSFRPLKCYLFKLGFCRFCTVKYDKNITELDNMYVHLTNVSVQKHGA 92
G +KFD+R +VLV + YL++ G R + Y +M HLTN +QK +
Sbjct: 198 GHRKFDIRSWVLVDN--QYNIYLYREGVLRTSSEPYSDT--NFQDMTSHLTNHCIQKEHS 253
Query: 93 DY--NNIHGGKMNLQNLRLYLESTRGKDITNKLFTNISWLIVHSLKSVSYIMANDK---H 147
G +M + YL ++ ++ N + I +I L + ++ H
Sbjct: 254 KNYGRYEEGNEMFFEEFNQYLVTSLNINLENSILCQIKEIIRVCLSCLEPAISTKYLPYH 313
Query: 148 CFECYGYDIIIDNQLKPWLIEVNASPSLTCTTVND 182
F+ +G+D ++D LK WLIEVN +P+ +
Sbjct: 314 SFQLFGFDFMVDKNLKVWLIEVNGAPACAQKLYAE 348
>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 = 42.1 bits (98), Expect = 1e-04
Identities = 35/183 (19%), Positives = 62/183 (33%), Gaps = 42/183 (22%)
Query: 102 MNLQNLRLYLES--TRGKDITNKLFTNISWLIVHSLKSVSYIMANDKHCFECYGYDIIID 159
LQ L ++ T D ++ + I + + ++ + + C +++
Sbjct: 200 EMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQ----AELRRLLKSKPYE-NCL---LVLL 251
Query: 160 NQLKPWLIEV-NASPSLTC----TT----VND--------RILISPAEKLLATADD---- 198
N N L+C TT V D I + L T D+
Sbjct: 252 NVQNAKAWNAFN----LSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTL-TPDEVKSL 306
Query: 199 LYKNLEETVFKLNAE---LGPKVQEQLAEVVKKAKSSLEEMKKNLVDALPVVFESS---E 252
L K L+ L E P+ +AE ++ ++ + K D L + ESS
Sbjct: 307 LLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVL 366
Query: 253 DPA 255
+PA
Sbjct: 367 EPA 369
Score = 34.4 bits (78), Expect = 0.032
Identities = 34/234 (14%), Positives = 62/234 (26%), Gaps = 85/234 (36%)
Query: 18 IF-KIVNI-------------EEEDMTVV-----------GGKKFDLRLYVLVTSFRP-- 50
+F +I + + M VV K+ + + + +
Sbjct: 380 VFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKL 439
Query: 51 ----------LKCYLFKLGFCRFCTVKYDKNITELDN-MYVHLTNVSVQKHGADYNNIHG 99
+ Y F D LD Y H+ G + H
Sbjct: 440 ENEYALHRSIVDHYNIPKTFD-----SDDLIPPYLDQYFYSHI--------G--H---H- 480
Query: 100 GKMNLQNLRLYLESTRGKDITNKLFTNISWL---IVHS--LKSVSYIMANDKHCFECYGY 154
L+N+ + +F + +L I H + S + N + Y
Sbjct: 481 ----LKNIEHPERM----TLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYK- 531
Query: 155 DIIIDNQ---------LKPWLIEVNASPSLTCTTVND---RILISPAEKLLATA 196
I DN + +L +L C+ D L++ E + A
Sbjct: 532 PYICDNDPKYERLVNAILDFLP--KIEENLICSKYTDLLRIALMAEDEAIFEEA 583
Score = 34.4 bits (78), Expect = 0.034
Identities = 26/169 (15%), Positives = 53/169 (31%), Gaps = 46/169 (27%)
Query: 12 SEAAKIIFKIVNIEEEDMTVVGGKKFDLRLYVLVTSFRPLKCYLF----KLGFCR---FC 64
E ++ K ++ + DL VL T+ P + + + G +
Sbjct: 301 DEVKSLLLKYLDCRPQ----------DLPREVLTTN--PRRLSIIAESIRDGLATWDNWK 348
Query: 65 TVKYDKNITELDNMYVHLTNVSVQKHGADYNNIHGGKMNLQNLRLYLESTRGKDITNKLF 124
V DK T +++ L +K + L ++ S I L
Sbjct: 349 HVNCDKLTTIIESSLNVLEPAEYRKM---F----------DRLSVFPPSA---HIPTILL 392
Query: 125 TNISW---------LIVHSLKSVSYIMANDKHCFECYGYDIIIDNQLKP 164
+ + W ++V+ L S + K I ++ ++K
Sbjct: 393 S-LIWFDVIKSDVMVVVNKLHKYSLVEKQPKE-STISIPSIYLELKVKL 439
>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 = 39.6 bits (92), Expect = 8e-04
Identities = 35/196 (17%), Positives = 58/196 (29%), Gaps = 97/196 (49%)
Query: 109 LYLESTRGKDITNKLFTNISWLIVHSLKSVSYIMANDKHCFECYGY---DIIIDNQLKPW 165
LY S +D+ N+ A D H + YG+ DI+I+N P
Sbjct: 1635 LYKTSKAAQDVWNR--------------------A-DNHFKDTYGFSILDIVINN---PV 1670
Query: 166 LIEVNASP-----------SLTCTTVNDR------------------ILISPAEKLLAT- 195
+ ++ ++ T+ D S L AT
Sbjct: 1671 NLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQ 1730
Query: 196 -----------ADDLYKNL-EETVFKLNAE-----LGPKVQE-----QLAEVVKKAKSSL 233
A +++L + + +A LG E LA+V+ S+
Sbjct: 1731 FTQPALTLMEKA--AFEDLKSKGLIPADATFAGHSLG----EYAALASLADVM-----SI 1779
Query: 234 EEMKKNLVDALPVVFE 249
E + VVF
Sbjct: 1780 E-------SLVEVVFY 1788
Score = 35.0 bits (80), Expect = 0.023
Identities = 54/329 (16%), Positives = 97/329 (29%), Gaps = 126/329 (38%)
Query: 6 LMNVIGSEAAKI--IFKIVNIEEEDMTVVGG-----KKFD-LR-LYVLVTSFRPLKCYLF 56
L +G A++ IF GG F+ LR LY ++ L L
Sbjct: 145 LFRAVGEGNAQLVAIF-------------GGQGNTDDYFEELRDLY---QTYHVLVGDLI 188
Query: 57 KLGFCRFCTVKYDKNITELDNMYVH-------LTNVSVQKHGADY--------------- 94
K + + + + ++ L N S DY
Sbjct: 189 KFSAETLSELI--RTTLDAEKVFTQGLNILEWLENPS-NTPDKDYLLSIPISCPLIGVIQ 245
Query: 95 -------NNIHGGKMNLQNLRLYLE--STRGKDITNKLFTNI--SW-----LIVHSLKSV 138
+ G LR YL+ + + + + SW + ++ +
Sbjct: 246 LAHYVVTAKLLG--FTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVL 303
Query: 139 SYIMANDKHCFECYGYDIIIDNQLKPWLIEVNASPSLTCTTVNDRILI-SPAEKLLATAD 197
+I C+E Y + PS+ ++ + + SP +L+ ++
Sbjct: 304 FFIGV---RCYEAYP--------------NTSLPPSILEDSLENNEGVPSP---MLSISN 343
Query: 198 DLYKNLEETVFKLNAEL------------GPK-------------VQEQLAEVVKKAKSS 232
+ +++ V K N+ L G K + L + KA S
Sbjct: 344 LTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKA--KAPSG 401
Query: 233 LE-------EMKKNLVDA-LPVV--FESS 251
L+ E K + LPV F S
Sbjct: 402 LDQSRIPFSERKLKFSNRFLPVASPFHSH 430
Score = 31.9 bits (72), Expect = 0.20
Identities = 30/150 (20%), Positives = 45/150 (30%), Gaps = 39/150 (26%)
Query: 7 MNVIGSEAAKIIFKIVNIEEEDMTVVGGKKFDLRLYVLVTSFRPLKC--------YLF-- 56
N ++ +VN VV G L Y L + R K F
Sbjct: 356 TNSHLPAGKQVEISLVN--GAKNLVVSGPPQSL--YGLNLTLRKAKAPSGLDQSRIPFSE 411
Query: 57 -KLGF-CRFCTV------KYDKNITELDNMYVHLTNVSVQKHGAD-----YNNIHGGKMN 103
KL F RF V ++L + L +V + D Y + G +
Sbjct: 412 RKLKFSNRFLPVASPFHSHLLVPASDL--INKDLVKNNVSFNAKDIQIPVY-DTFDGS-D 467
Query: 104 LQNLRLYLESTRGKDITNKLFTNISWLIVH 133
L+ L I+ ++ I L V
Sbjct: 468 LRVLS--------GSISERIVDCIIRLPVK 489
Score = 29.6 bits (66), Expect = 1.1
Identities = 40/315 (12%), Positives = 85/315 (26%), Gaps = 129/315 (40%)
Query: 5 MLMNVIG-SEAAKIIFK-------------IVNIEEED---MTVV-GGKKFDLRLYVLVT 46
M M++ S+AA+ ++ I++I + +T+ GG+K R+
Sbjct: 1631 MGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEK-GKRIREN-- 1687
Query: 47 SFRPLKCYLFKLGFCRFCTVKYDKNITELDNMYVH------LTN--------VSV----- 87
+ + G + + + N + T +
Sbjct: 1688 -YSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFED 1746
Query: 88 -QKHGA-DYNNI---H-----------GGKMNLQNLRLYLESTRGKDITNKLFTNISWLI 131
+ G + H M++++L + + RG
Sbjct: 1747 LKSKGLIPADATFAGHSLGEYAALASLADVMSIESL-VEVVFYRGM-------------- 1791
Query: 132 VHSLKSVSYIMANDKHCFECYGYDIIIDNQLKPWLIEVNASPSLTCTTVNDRILISPAEK 191
++ + D+ YG +I +N P + + E
Sbjct: 1792 -----TMQVAVPRDELGRSNYG------------MIAIN--PGRVAASFSQ-------EA 1825
Query: 192 LLATADDLYKNLEETV----FKLNAELGPKVQ----------EQLAEVVKKAKS------ 231
L + + K V + N Q + + V+ K
Sbjct: 1826 LQYVVERVGKRTGWLVEIVNY--NV---ENQQYVAAGDLRALDTVTNVLNFIKLQKIDII 1880
Query: 232 ------SLEEMKKNL 240
SLEE++ +L
Sbjct: 1881 ELQKSLSLEEVEGHL 1895
>1fmj_A Retinol dehydratase; sulfotransferase, adenosine 3',5'-
diphosphate; HET: A3P RTL; 2.00A {Spodoptera frugiperda}
SCOP: c.37.1.5 PDB: 1fml_A* 1x8l_A* 1x8k_A* 1x8j_A*
Length = 351
Score = 31.9 bits (72), Expect = 0.17
Identities = 12/62 (19%), Positives = 25/62 (40%), Gaps = 3/62 (4%)
Query: 198 DLYKNLEETVFKLNAELGPKV-QEQLAEVVKKAKSSLEEMKKNLVDALPVVFESSEDPAK 256
D K+L + ++ LG K+ +EQ+ + + + E+ K N + E
Sbjct: 250 DYLKDLPGCIARIADFLGKKLSEEQIQRLCEH--LNFEKFKNNGAVNMEDYREIGILADG 307
Query: 257 KA 258
+
Sbjct: 308 EH 309
>2ov8_A STAL; sulfotransferase, structural genomics, montr kingston
bacterial structural genomics initiative, BSGI, UN
function; 2.58A {Streptomyces toyocaensis} PDB: 2ovb_A
2ovf_A*
Length = 288
Score = 31.5 bits (72), Expect = 0.21
Identities = 11/42 (26%), Positives = 22/42 (52%), Gaps = 2/42 (4%)
Query: 198 DLYKNLEETVFKLNAELGPKVQEQLAEVVKKAKSSLEEMKKN 239
DL K+ E ++K+ L ++ +A+ V +LE M++
Sbjct: 183 DLRKDPEGELWKVVDFLELGGRDGVADAVA--NCTLERMREM 222
>1iow_A DD-ligase, DDLB, D-ALA\:D-Ala ligase; glycogen phosphorylase, cell
WALL, peptidoglycan synthesis, vancomycin, ADP binding;
HET: ADP PHY; 1.90A {Escherichia coli} SCOP: c.30.1.2
d.142.1.1 PDB: 1iov_A* 2dln_A* 3v4z_A*
Length = 306
Score = 31.3 bits (72), Expect = 0.25
Identities = 10/29 (34%), Positives = 19/29 (65%), Gaps = 3/29 (10%)
Query: 151 CYGY---DIIIDNQLKPWLIEVNASPSLT 176
C G+ D+++D+ + +L+E N SP +T
Sbjct: 250 CKGWGRIDVMLDSDGQFYLLEANTSPGMT 278
>4eg0_A D-alanine--D-alanine ligase; structural genomics, seattle
structural genomics center for infectious disease,
ssgcid; 1.65A {Burkholderia ambifaria} PDB: 4egq_A
Length = 317
Score = 31.4 bits (72), Expect = 0.29
Identities = 8/29 (27%), Positives = 15/29 (51%), Gaps = 3/29 (10%)
Query: 151 CYGY---DIIIDNQLKPWLIEVNASPSLT 176
C + D ++D + +EVN +P +T
Sbjct: 259 CTDWGRADFMLDAAGNAYFLEVNTAPGMT 287
>1j99_A Alcohol sulfotransferase; dehydroepiandosterone, DHEA; HET: AND;
1.99A {Homo sapiens} SCOP: c.37.1.5 PDB: 1ov4_A* 3f3y_A*
2qp3_A* 2qp4_A* 1efh_A*
Length = 293
Score = 30.4 bits (69), Expect = 0.54
Identities = 13/43 (30%), Positives = 24/43 (55%), Gaps = 3/43 (6%)
Query: 198 DLYKNLEETVFKLNAELGPKV-QEQLAEVVKKAKSSLEEMKKN 239
+L ++ T+ K+ LG + E+L ++K SS + MK+N
Sbjct: 194 ELKQDTGRTIEKICQFLGKTLEPEELNLILKN--SSFQSMKEN 234
>1uc8_A LYSX, lysine biosynthesis enzyme; alpha-aminoadipate pathway, riken
structural genomics/proteomics initiative, RSGI,
structural genomics; 2.00A {Thermus thermophilus} SCOP:
c.30.1.6 d.142.1.7 PDB: 1uc9_A*
Length = 280
Score = 29.7 bits (67), Expect = 0.76
Identities = 4/24 (16%), Positives = 8/24 (33%), Gaps = 1/24 (4%)
Query: 152 YGYDIIIDNQLKPWLIEVNASPSL 175
D+ + + EVN +
Sbjct: 234 VAVDLFESER-GLLVNEVNHTMEF 256
>2q7d_A Inositol-tetrakisphosphate 1-kinase; inositol kinase, ITPK1,
inositol 1,3,4-5/6 phosphate, inositol phosphate,
inositolphosphate; HET: ANP; 1.60A {Homo sapiens} PDB:
2qb5_A* 2odt_X
Length = 346
Score = 29.3 bits (65), Expect = 1.1
Identities = 11/24 (45%), Positives = 17/24 (70%), Gaps = 1/24 (4%)
Query: 152 YGYDIIIDNQL-KPWLIEVNASPS 174
+G DIII+NQ + +I++NA P
Sbjct: 289 FGIDIIINNQTGQHAVIDINAFPG 312
>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 = 28.8 bits (63), Expect = 1.1
Identities = 11/40 (27%), Positives = 18/40 (45%), Gaps = 13/40 (32%)
Query: 219 QEQLAEVVKKAKSSLEEMKKNLVDALPVVFESSEDPAKKA 258
++Q +KK ++SL K D+ P + A KA
Sbjct: 18 EKQ---ALKKLQASL---KLYADDSAPAL-------AIKA 44
>3r5x_A D-alanine--D-alanine ligase; alpha-beta structure, cytosol,
structural genomics, for structural genomics of
infectious diseases, csgid; HET: MSE ATP; 2.00A
{Bacillus anthracis} PDB: 3r23_A*
Length = 307
Score = 29.0 bits (66), Expect = 1.3
Identities = 9/29 (31%), Positives = 17/29 (58%), Gaps = 4/29 (13%)
Query: 151 CYGY---DIIIDNQLKPWLIEVNASPSLT 176
C Y D+++ + P+++EVN P +T
Sbjct: 244 CSVYARVDMMVKDG-IPYVMEVNTLPGMT 271
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.6 bits (63), Expect = 1.5
Identities = 16/54 (29%), Positives = 25/54 (46%), Gaps = 1/54 (1%)
Query: 186 ISPAEKLLATADDLYKNLEETVFKLNAELGPKVQEQLAEVVKKAKSSLEEMKKN 239
I+ A++L + + K EE +L EL + E +KAK LEE +
Sbjct: 74 IAQADRLTQEPESIRKWREEQRKRL-QELDAASKVMEQEWREKAKKDLEEWNQR 126
>3ln6_A Glutathione biosynthesis bifunctional protein GSH; gamma-glutamyl
cysteine ligase domain, ATP-grAsp domain, HYB enzyme;
2.95A {Streptococcus agalactiae serogroup V}
Length = 750
Score = 29.1 bits (65), Expect = 1.7
Identities = 9/31 (29%), Positives = 15/31 (48%), Gaps = 8/31 (25%)
Query: 153 GYDIIIDNQLKPWL--------IEVNASPSL 175
G D+II N + + IE+N +P +
Sbjct: 694 GVDLIIPNATQAYSKDKKNATCIELNFNPLM 724
>3mgb_A TEG12; sulfotransferase, glycopeptide, antibiotic, transferase-anti
complex; HET: GHP 3MY 3FG OMY PAP; 2.04A {Uncultured
soil bacterium} PDB: 3mgc_A* 3mg9_A* 3nib_A*
Length = 319
Score = 29.0 bits (65), Expect = 1.7
Identities = 10/63 (15%), Positives = 18/63 (28%), Gaps = 5/63 (7%)
Query: 198 DLYKNLEETVFKLNAELGPKVQ---EQLAEVVKKAKSSLEEMKKNLVDALPVVFESSEDP 254
DL + ++ L E + V S+LE M++ + S
Sbjct: 203 DLKGDPVARFSEIVEFLDLGGPVDIEDIRRAVAA--STLERMRELEKRSEQQGGGSPIRH 260
Query: 255 AKK 257
Sbjct: 261 GDA 263
>3ln7_A Glutathione biosynthesis bifunctional protein GSH;
gamma-glutamylcysteine ligase domain, ATP-grAsp domain,
HYBR enzyme, ATP-binding; 3.20A {Pasteurella multocida}
Length = 757
Score = 29.1 bits (65), Expect = 1.8
Identities = 9/31 (29%), Positives = 14/31 (45%), Gaps = 8/31 (25%)
Query: 153 GYDIIIDNQLKPWL--------IEVNASPSL 175
G D+II + +P IE N +P +
Sbjct: 700 GVDLIIPDLKQPATPNLTSWGVIEANFNPMM 730
>1q44_A RARO47, steroid sulfotransferase, AT2G03760/; APO, structu
genomics, protein structure initiative, center for
eukaryot structural genomics; 1.90A {Arabidopsis
thaliana} SCOP: c.37.1.5 PDB: 2q3m_A
Length = 326
Score = 28.7 bits (64), Expect = 2.0
Identities = 11/47 (23%), Positives = 21/47 (44%), Gaps = 4/47 (8%)
Query: 198 DLYKNLEETVFKLNAELGPKV--QEQLAEVVKKAKSSLEEMKKNLVD 242
+L K E + ++ L +E++ E+VK S E + V+
Sbjct: 230 ELKKQTEVEMKRIAEFLECGFIEEEEVREIVKL--CSFESLSNLEVN 274
>3df7_A Putative ATP-grAsp superfamily protein; putative protein, PSI-II,
nysgrc., structural genomics, protein structure
initiative; 1.87A {Archaeoglobus fulgidus}
Length = 305
Score = 27.4 bits (60), Expect = 4.8
Identities = 11/54 (20%), Positives = 22/54 (40%), Gaps = 2/54 (3%)
Query: 141 IMANDKHCFECYGYDIIIDNQLKPWLIEVNASPSLTCTTVNDRILISPAEKLLA 194
+ + G DI+ + +P++IE+NA + + S A+ L
Sbjct: 219 AVECVEGLNGYVGVDIVYSD--QPYVIEINARLTTPVVAFSRAYGASVADLLAG 270
>3r2p_A Apolipoprotein A-I; amphipathic alpha-helix, major protein of high
density lipop (HDL), lipid binding, plasma, lipid
transport; 2.20A {Homo sapiens} PDB: 1gw3_A 1gw4_A
Length = 185
Score = 27.0 bits (59), Expect = 4.8
Identities = 12/50 (24%), Positives = 21/50 (42%), Gaps = 4/50 (8%)
Query: 190 EKLLATADDLYKNLEETVFKLNAELGPKVQEQLAEVVKKAKSSLEEMKKN 239
EKL +++ V L L P E+ ++ + LE +K+N
Sbjct: 140 EKLSPLGEEMRDRARAHVDALRTHLAPYSD----ELRQRLAARLEALKEN 185
>3g7d_A PHPD; non heme Fe(II) dioxygenase, cupin, biosynthetic protein;
1.80A {Streptomyces viridochromogenes} PDB: 3gbf_A
3rzz_A
Length = 443
Score = 27.1 bits (59), Expect = 6.3
Identities = 12/59 (20%), Positives = 21/59 (35%), Gaps = 3/59 (5%)
Query: 106 NLRLYLESTRGKDITNKLFTNISWLIVHSLKSVSYI---MANDKHCFECYGYDIIIDNQ 161
+ R+ L + D K +T I +Y MA+ H + G + +D
Sbjct: 286 DYRVLLPADDQHDGVGKTWTTIEDSRRSRRTFGTYEAASMASAAHLPDLVGSFLRVDAD 344
>3se7_A VANA; alpha-beta structure, D-alanine-D-lactate ligase, ligase;
HET: ATP; 3.07A {}
Length = 346
Score = 26.8 bits (60), Expect = 7.0
Identities = 10/30 (33%), Positives = 13/30 (43%), Gaps = 3/30 (10%)
Query: 150 ECYGY---DIIIDNQLKPWLIEVNASPSLT 176
C G D+ + K L EVN P +T
Sbjct: 284 GCRGLSRVDLFLTEDGKVVLNEVNTFPGMT 313
>1wz2_A Leucyl-tRNA synthetase; ligase, riken structural
genomics/proteomics initiativ structural genomics,
ligase-RNA complex; 3.21A {Pyrococcus horikoshii}
Length = 967
Score = 26.9 bits (59), Expect = 7.8
Identities = 12/53 (22%), Positives = 21/53 (39%), Gaps = 7/53 (13%)
Query: 213 ELGPKVQEQLAEVVKKAK-----SSLEEMKKNLVDAL--PVVFESSEDPAKKA 258
E+ VQ+ + E K +L E K+ + L ++ +ED K
Sbjct: 902 EVAKIVQKLIKERTFDVKRINEEKALREAKEFMEKELGIEIIINPTEDKGGKK 954
>2gxg_A 146AA long hypothetical transcriptional regulator; winged helix;
1.45A {Sulfolobus tokodaii} PDB: 2eb7_A 2yr2_A 3gez_A
3gf2_A* 3gfi_A 3gfm_A 3gfj_A 3gfl_A
Length = 146
Score = 26.2 bits (58), Expect = 8.1
Identities = 13/60 (21%), Positives = 26/60 (43%), Gaps = 2/60 (3%)
Query: 181 NDR--ILISPAEKLLATADDLYKNLEETVFKLNAELGPKVQEQLAEVVKKAKSSLEEMKK 238
DR ILI EK L T + + ++ ++ +L + + + K +EE+ +
Sbjct: 87 EDRRKILIEITEKGLETFNKGIEIYKKLANEVTGDLSEDEVILVLDKISKILKRIEEISQ 146
>3r8s_N 50S ribosomal protein L17; protein biosynthesis, RNA, tRNA,
transfer RNA, 23S ribosomal subunit, ribosome recycling
factor, RRF, ribosome; 3.00A {Escherichia coli} PDB:
3fik_N 2wwq_N 3oat_N* 3oas_N* 3ofd_N 3ofc_N 3ofr_N*
3ofz_N* 3og0_N 3ofq_N 3r8t_N 3i1n_N 1p85_L 1p86_L 1vs8_N
1vs6_N 2aw4_N 2awb_N 1vt2_N 2i2v_N ...
Length = 120
Score = 25.9 bits (58), Expect = 8.3
Identities = 9/26 (34%), Positives = 13/26 (50%)
Query: 103 NLQNLRLYLESTRGKDITNKLFTNIS 128
++ N RL TR +I KLF +
Sbjct: 59 SVANRRLAFARTRDNEIVAKLFNELG 84
>3ung_C CMR2DHD; ferredoxin fold, nucleotide-binding, polymerase, CMR
complex function; HET: ADP; 2.31A {Pyrococcus furiosus}
PDB: 3ur3_C 4doz_A
Length = 693
Score = 26.6 bits (57), Expect = 9.4
Identities = 14/67 (20%), Positives = 25/67 (37%), Gaps = 9/67 (13%)
Query: 182 DRILISPAEKLLATADDLYKNLEETVFKLNAELGP---------KVQEQLAEVVKKAKSS 232
D + I P +K L A + K ++ + G + L + ++KA+
Sbjct: 496 DVLAILPVDKALEVAYKIRKEFGKSFENGSLLPGWKLSAGILIVHYKHPLYDALEKARDL 555
Query: 233 LEEMKKN 239
L KN
Sbjct: 556 LNNKAKN 562
>3vmm_A Alanine-anticapsin ligase BACD; ATP-grAsp domain, amino acid
ligase, ATP binding; HET: ADP P0D; 2.50A {Bacillus
subtilis}
Length = 474
Score = 26.4 bits (58), Expect = 9.8
Identities = 6/17 (35%), Positives = 9/17 (52%)
Query: 155 DIIIDNQLKPWLIEVNA 171
+I + +P LIE A
Sbjct: 313 EIKLMKNREPGLIESAA 329
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 0.135 0.389
Gapped
Lambda K H
0.267 0.0812 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,835,837
Number of extensions: 223122
Number of successful extensions: 540
Number of sequences better than 10.0: 1
Number of HSP's gapped: 531
Number of HSP's successfully gapped: 45
Length of query: 258
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 166
Effective length of database: 4,133,061
Effective search space: 686088126
Effective search space used: 686088126
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: 56 (25.2 bits)