RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12048
(267 letters)
>1rk8_C PYM protein, within the BGCN gene intron protein, CG30176-PA;
mRNA processing, RRM, RBD, NMD, oskar mRNA
localization, translation; 1.90A {Drosophila
melanogaster} SCOP: b.72.3.1
Length = 58
Score = 59.4 bits (143), Expect = 3e-12
Identities = 31/46 (67%), Positives = 38/46 (82%)
Query: 2 GVYIQPSRRPDGTFRKAIRVKAGYVPQDEVPLYESKGKQFANRQAA 47
G +I ++RPDGT+RKA RVK GYVPQ+EVPLYESKGKQF ++ A
Sbjct: 10 GKFIPATKRPDGTWRKARRVKDGYVPQEEVPLYESKGKQFVAQRQA 55
Score = 31.7 bits (71), Expect = 0.025
Identities = 18/24 (75%), Positives = 21/24 (87%)
Query: 81 GYVPQDEVPLYESKGKQFANRQAA 104
GYVPQ+EVPLYESKGKQF ++ A
Sbjct: 32 GYVPQEEVPLYESKGKQFVAQRQA 55
>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment
2, heavy meromyosin, essential light chain, motor
protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1
PDB: 3j04_A 3dtp_B 3dtp_A
Length = 1184
Score = 38.3 bits (89), Expect = 0.002
Identities = 32/122 (26%), Positives = 53/122 (43%), Gaps = 16/122 (13%)
Query: 144 EELEKRIKNLKKKVREITVQVTHPVEMPRQLNLKVSLKPPAPSELNFDNLSPEELEKRIK 203
+ELEK + L+ + ++ Q+ +L +++ K EL E+ +
Sbjct: 1056 QELEKIKRKLEGESSDLHEQIAELQAQIAELKAQLAKK---EEELQAALARLEDETSQKN 1112
Query: 204 NLKKKVRE----IKTLEQKIESGEIKNPEKDQLEKLQR-KPDLLSEIMALKLSLHGEEGE 258
N KK+RE I L++ +ES EK K ++ K DL E+ ALK L E+
Sbjct: 1113 NALKKIRELESHISDLQEDLES------EKAARNKAEKQKRDLSEELEALKTEL--EDTL 1164
Query: 259 GE 260
Sbjct: 1165 DT 1166
Score = 30.6 bits (69), Expect = 0.63
Identities = 19/117 (16%), Positives = 47/117 (40%), Gaps = 19/117 (16%)
Query: 144 EELEKRIKNLKKKVREITVQVTHPVEMPRQLNLKVSLKPPAPSELNFDNLSPEELEKRIK 203
+++++++ +L++++ E + K+ ++ +++
Sbjct: 951 KKMQQQMLDLEEQLEEEEAARQKLQLEKVTADGKIK-------KME------DDILIMED 997
Query: 204 NLKKKVREIKTLEQKIESGEIKNPEKD----QLEKLQRKPDLLSEIMALKLSLHGEE 256
K +E K LE+++ E++ L KL+ K S I L++ L EE
Sbjct: 998 QNNKLTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKNK--HESMISELEVRLKKEE 1052
>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 = 36.8 bits (84), Expect = 0.007
Identities = 23/142 (16%), Positives = 46/142 (32%), Gaps = 30/142 (21%)
Query: 137 NFDNLSPEELEKRIKNLKKKVREITVQVTHPVEMPRQLNLKVSLKPPAPSELNFDNLSPE 196
NFD +++ K I L K+ + + V +L + K + + E
Sbjct: 32 NFDCKDVQDMPKSI--LSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVE----E 85
Query: 197 ELEKRIKNLKKKVREIKTLEQKIESGEIKNPEKDQLEKLQRKPDLLS--------EIMAL 248
L K L ++ EQ+ S + +Q ++L + + + L
Sbjct: 86 VLRINYKFLMSPIKT----EQRQPSMMTRMYI-EQRDRLYNDNQVFAKYNVSRLQPYLKL 140
Query: 249 K-----------LSLHGEEGEG 259
+ + + G G G
Sbjct: 141 RQALLELRPAKNVLIDGVLGSG 162
Score = 36.0 bits (82), Expect = 0.012
Identities = 34/281 (12%), Positives = 77/281 (27%), Gaps = 68/281 (24%)
Query: 26 VPQDEVPLYESKGKQFANRQAAQSIPIGLD----PSHVKKPVNPQNPIPGLVI------- 74
+ + + ++ + + L N I L+
Sbjct: 223 IKLRIHSIQAELRRLLKSKPYENCLLV-LLNVQNAKAWN-AFNLSCKI--LLTTRFKQVT 278
Query: 75 --LDADDLGYVPQDEV--PLYESKGKQ-FAN----------RQAAQSIP--IGLDPSHVK 117
L A ++ D L + K R+ + P + + ++
Sbjct: 279 DFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIR 338
Query: 118 KPVN-----PQNPIPGLPPAPSELNFDNLSPEELEKRIKNL---KKKVREITVQV----- 164
+ L E + + L P E K L I +
Sbjct: 339 DGLATWDNWKHVNCDKLTTI-IESSLNVLEPAEYRKMFDRLSVFPPSAH-IPTILLSLIW 396
Query: 165 -----THPVEMPRQLNLKVSL--KPPAPSELNFDNLSPEELEKR--IKNLKKKVREIKTL 215
+ + + +L+ SL K P S ++ ++ E K L + + + +
Sbjct: 397 FDVIKSDVMVVVNKLHKY-SLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNI 455
Query: 216 EQKIESGEIKNPEKDQ---------LEKLQR--KPDLLSEI 245
+ +S ++ P DQ L+ ++ + L +
Sbjct: 456 PKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMV 496
>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 = 35.0 bits (80), Expect = 0.022
Identities = 38/237 (16%), Positives = 75/237 (31%), Gaps = 80/237 (33%)
Query: 51 PIGLDPSH-VKKPVNPQNPIPGLVILDADDLGYVPQDEV--P---LYESKGKQFANRQAA 104
GL+ ++ P + P D D L +P + P + Q A+
Sbjct: 210 TQGLNILEWLENP----SNTP-----DKDYLLSIP---ISCPLIGVI-----QLAHYVVT 252
Query: 105 QSIPIGLDPSHVKKP-----VNPQNPIPGLPPAPSELNFDNLSPEELEKRIKNLKKKVRE 159
+ +G P ++ + Q + + A ++ S E +++K +
Sbjct: 253 AKL-LGFTPGELRSYLKGATGHSQGLVTAVAIAETD------SWESFFV---SVRKAITV 302
Query: 160 IT-----VQVTHPVEMPRQLNLKVSLK----PPAPSELNFDNLSPEELEKRIKNLKKKVR 210
+ +P L+ SL+ P+P L+ NL+ E+++ + K
Sbjct: 303 LFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPM-LSISNLTQEQVQDYV----NKTN 357
Query: 211 EIKTLEQKIE------------SG-------------EIKNP-EKDQLEKL--QRKP 239
+++E SG + K P DQ +RK
Sbjct: 358 SHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKL 414
>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 = 29.9 bits (66), Expect = 0.47
Identities = 9/30 (30%), Positives = 15/30 (50%), Gaps = 6/30 (20%)
Query: 228 EKDQLEKLQRK-----PDLLSEIMALKLSL 252
EK L+KLQ D + +A+K ++
Sbjct: 18 EKQALKKLQASLKLYADD-SAPALAIKATM 46
>1o69_A Aminotransferase; structural genomics, unknown function; HET: X04;
1.84A {Campylobacter jejuni} SCOP: c.67.1.4 PDB: 1o62_A
1o61_A*
Length = 394
Score = 29.5 bits (67), Expect = 1.0
Identities = 7/35 (20%), Positives = 16/35 (45%), Gaps = 2/35 (5%)
Query: 140 NLSPEELEKRIKNLKKKVREI-TVQVT-HPVEMPR 172
N+ + L+ IK +KK + + + + +M
Sbjct: 106 NIDVDLLKLAIKECEKKPKALILTHLYGNAAKMDE 140
Score = 28.4 bits (64), Expect = 2.4
Identities = 6/21 (28%), Positives = 12/21 (57%)
Query: 192 NLSPEELEKRIKNLKKKVREI 212
N+ + L+ IK +KK + +
Sbjct: 106 NIDVDLLKLAIKECEKKPKAL 126
>1e52_A Excinuclease ABC subunit; DNA excision repair, UVRB, DNA repair,
UVRC binding domain; NMR {Escherichia coli} SCOP:
a.2.9.1 PDB: 1qoj_A
Length = 63
Score = 27.1 bits (60), Expect = 1.1
Identities = 5/25 (20%), Positives = 15/25 (60%)
Query: 135 ELNFDNLSPEELEKRIKNLKKKVRE 159
+ ++SP+ L+++I L+ + +
Sbjct: 11 DNVPMDMSPKALQQKIHELEGLMMQ 35
Score = 27.1 bits (60), Expect = 1.1
Identities = 5/25 (20%), Positives = 15/25 (60%)
Query: 187 ELNFDNLSPEELEKRIKNLKKKVRE 211
+ ++SP+ L+++I L+ + +
Sbjct: 11 DNVPMDMSPKALQQKIHELEGLMMQ 35
>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein
struct initiative, northeast structural genomics
consortium, NESG, function; 2.40A {Bacillus halodurans}
SCOP: c.37.1.25
Length = 189
Score = 28.8 bits (64), Expect = 1.3
Identities = 12/40 (30%), Positives = 15/40 (37%)
Query: 130 PPAPSELNFDNLSPEELEKRIKNLKKKVREITVQVTHPVE 169
N +L P L +KNLK R I P+E
Sbjct: 144 IDERYFYNTSHLQPTNLNDIVKNLKTNPRFIFCMAGDPLE 183
>12as_A Asparagine synthetase; ligase, nitrogen fixation; HET: AMP; 2.20A
{Escherichia coli K12} SCOP: d.104.1.1 PDB: 11as_A*
Length = 330
Score = 29.3 bits (66), Expect = 1.3
Identities = 16/66 (24%), Positives = 27/66 (40%), Gaps = 6/66 (9%)
Query: 147 EKR-IKNLKKKVREITVQVTHPVEMPRQLNLKVSLKPPAPSELNFDNLSPEELEKRIKNL 205
+R LK V I + ++ + L P P +++F + +EL R +L
Sbjct: 126 GERQFSTLKSTVEAIWAGI---KATEAAVSEEFGLAPFLPDQIHF--VHSQELLSRYPDL 180
Query: 206 KKKVRE 211
K RE
Sbjct: 181 DAKGRE 186
>3zu3_A Putative reductase YPO4104/Y4119/YP_4011; oxidoreductase, fatty
acid biosynthesis II, short-chain dehydrogenase
reductase superfamily; HET: NAI; 1.80A {Yersinia pestis}
PDB: 3zu4_A* 3zu5_A* 3zu2_A*
Length = 405
Score = 29.3 bits (65), Expect = 1.4
Identities = 10/52 (19%), Positives = 23/52 (44%)
Query: 188 LNFDNLSPEELEKRIKNLKKKVREIKTLEQKIESGEIKNPEKDQLEKLQRKP 239
+N D S E + I +K+ + ++ + + S +P+ ++ KP
Sbjct: 114 INGDAFSDEIKQLTIDAIKQDLGQVDQVIYSLASPRRTHPKTGEVFNSALKP 165
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.0 bits (64), Expect = 1.4
Identities = 7/44 (15%), Positives = 20/44 (45%), Gaps = 4/44 (9%)
Query: 196 EELEKRIKNLKKKVREIKTLEQKIESG--EIKNPEKDQLEKLQR 237
EE KR++ + ++ E +++ + Q E++++
Sbjct: 92 EEQRKRLQ--ELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEK 133
>2d7d_A Uvrabc system protein B; helicase, protein-DNA-ADP ternary complex,
hydrolase/DNA complex; HET: ADP; 2.10A {Bacillus
subtilis} PDB: 2nmv_A* 2fdc_A* 1t5l_A 3uwx_B 1d9z_A*
1d9x_A 2d7d_B* 2nmv_B*
Length = 661
Score = 29.0 bits (66), Expect = 1.9
Identities = 6/61 (9%), Positives = 24/61 (39%), Gaps = 9/61 (14%)
Query: 151 KNLKKKVREITVQVTHPVEMPRQLNLKVSLKPPAPSELNFDNLSPEELEKRIKNLKKKVR 210
K + K++R++ + + ++ +E +K ++ ++ +++
Sbjct: 586 KTINKEIRDVIRATVAAEDKAEY---------KTKAAPKLSKMTKKERQKVVEQMEHEMK 636
Query: 211 E 211
E
Sbjct: 637 E 637
Score = 28.7 bits (65), Expect = 2.1
Identities = 6/56 (10%), Positives = 21/56 (37%), Gaps = 6/56 (10%)
Query: 110 GLDPSHVKKPVN------PQNPIPGLPPAPSELNFDNLSPEELEKRIKNLKKKVRE 159
G+ P + K + + ++ +E +K ++ ++ +++E
Sbjct: 582 GITPKTINKEIRDVIRATVAAEDKAEYKTKAAPKLSKMTKKERQKVVEQMEHEMKE 637
>2iu8_A LPXD, UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase;
UDP-3- O-acyl-glucosamine N-acyltransferase, lipid A
biosynthesis; HET: PLM UD1; 2.2A {Chlamydia trachomatis}
PDB: 2iu9_A* 2iua_A*
Length = 374
Score = 28.8 bits (65), Expect = 2.1
Identities = 8/22 (36%), Positives = 16/22 (72%)
Query: 197 ELEKRIKNLKKKVREIKTLEQK 218
LE+RI L+K V++++ L ++
Sbjct: 352 RLEERIAALEKLVQKLEALSEQ 373
>3r8n_C 30S ribosomal protein S3; protein biosynthesis, RNA, tRNA, transfer
RNA, 16S ribosomal subunit, RRF; 3.00A {Escherichia
coli} PDB: 2gyb_C 2gy9_C* 2ykr_C 3fih_C* 2wwl_C 3oar_C
3oaq_C 3ofb_C 3ofa_C 3ofp_C 3ofx_C 3ofy_C 3ofo_C 3r8o_C
4a2i_C
Length = 206
Score = 28.3 bits (64), Expect = 2.1
Identities = 12/43 (27%), Positives = 21/43 (48%), Gaps = 10/43 (23%)
Query: 202 IKNLKKKVREIKTLEQKIESGEIKNPEKD----------QLEK 234
++ L+K V +I + +I E++ PE D QLE+
Sbjct: 83 VEKLRKVVADIAGVPAQINIAEVRKPELDAKLVADSITSQLER 125
>1sig_A Sigma70, RNA polymerase primary sigma factor; RNA polymerase sigma
factor, transcription regulation; 2.60A {Escherichia
coli} SCOP: a.177.1.1
Length = 339
Score = 28.7 bits (64), Expect = 2.2
Identities = 14/102 (13%), Positives = 31/102 (30%), Gaps = 8/102 (7%)
Query: 141 LSPEELEKRIKNLKKKVRE-ITVQVTHPVEMPRQLNLKVSLKPPAPSELNFDNLSP---E 196
+ PE ++ L+ + + L L P +
Sbjct: 103 IDPELAREKFAELRAQYVVTRDTIKAKGRSHATAQEEILKLS----EVFKQFRLVPKQFD 158
Query: 197 ELEKRIKNLKKKVREIKTLEQKIESGEIKNPEKDQLEKLQRK 238
L ++ + +VR + L K+ + K P+K+ +
Sbjct: 159 YLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGN 200
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 28.5 bits (64), Expect = 2.5
Identities = 24/99 (24%), Positives = 42/99 (42%), Gaps = 11/99 (11%)
Query: 144 EELEKRIKNLKKKVREITVQVTHPVEMPRQLNLKVSLKPPAPSELNFDNLS----PEELE 199
L++ I L+K++ + + E + + SEL N EEL
Sbjct: 987 LSLQEEIAKLRKELHQTQTEKKTIEEWADKYKHETEQLV---SELKEQNTLLKTEKEELN 1043
Query: 200 KRIKNLKKKVREIKTLEQKIESGEIKNPEKDQLEKLQRK 238
+RI + K++ E T+E+K+ E K E D L + +
Sbjct: 1044 RRIHDQAKEITE--TMEKKLVE-ETKQLELD-LNDERLR 1078
>2hqb_A Transcriptional activator of COMK gene; berkeley structure genomics
center target 1957B, structural genomics, PSI; 2.70A
{Bacillus halodurans}
Length = 296
Score = 28.4 bits (64), Expect = 2.5
Identities = 3/27 (11%), Positives = 15/27 (55%), Gaps = 2/27 (7%)
Query: 203 KNLKKKVREIKTLEQKIESGEIKNPEK 229
+++++ + + I++G+ + E+
Sbjct: 271 DEVREQITD--AISTYIQTGQFPHEEE 295
>2f9y_A Acetyl-COA carboxylase, carboxyltransferase alpha; zinc ribbon,
crotonase superfamily, spiral domain, ligase; 3.20A
{Escherichia coli} SCOP: c.14.1.4
Length = 339
Score = 28.5 bits (64), Expect = 2.6
Identities = 10/50 (20%), Positives = 24/50 (48%), Gaps = 3/50 (6%)
Query: 197 ELEKRIKNLKKKVREIKTLEQKIESGEIKNPEKDQLEKLQRKPD-LLSEI 245
+ E+ I L+ K+ + ++ E +I +++ +L+ K L +I
Sbjct: 27 DFEQPIAELEAKIDSLTAGSRQDEKLDIN--IDEEVHRLREKSVELTRKI 74
>1mqm_B Hemagglutinin HA2 chain; influenza virus, viral protein; HET: NAG
BMA MAN SIA GAL; 2.60A {Influenza a virus} SCOP: h.3.1.1
PDB: 1mql_B* 1mqn_B* 2l4g_A
Length = 221
Score = 28.1 bits (62), Expect = 2.6
Identities = 15/60 (25%), Positives = 26/60 (43%), Gaps = 10/60 (16%)
Query: 189 NFDNLSPE--ELEKRIKNLKKKVREIKT--------LEQKIESGEIKNPEKDQLEKLQRK 238
F + E E+E RI++L+K V + K L +E+ + ++ KL K
Sbjct: 62 KFHQIEKEFSEVEGRIQDLEKYVEDTKIDLWSYNAELLVALENQHTIDLADSEMNKLFEK 121
>3q9l_A Septum site-determining protein MIND; ATPase, bacterial cell
division inhibitor, MINC, MINE, cell hydrolase; HET:
ATP; 2.34A {Escherichia coli} PDB: 3r9i_A* 3r9j_A*
Length = 260
Score = 28.0 bits (63), Expect = 2.9
Identities = 11/40 (27%), Positives = 19/40 (47%), Gaps = 3/40 (7%)
Query: 168 VEMPRQLNLKVSLKPPAPSELNFDNLSPEELEKRIKNLKK 207
++ R NL + PA + D L+ E + K + +LK
Sbjct: 75 IKDKRTENLYIL---PASQTRDKDALTREGVAKVLDDLKA 111
>3n5o_A Glutathione transferase; seattle structural genomics center for
infectious disease, S GST, pathogenic fungus,
coccidioidomycosis; HET: GSH; 1.85A {Coccidioides
immitis} PDB: 3lg6_A*
Length = 235
Score = 28.1 bits (63), Expect = 2.9
Identities = 7/31 (22%), Positives = 15/31 (48%)
Query: 63 VNPQNPIPGLVILDADDLGYVPQDEVPLYES 93
+NP N +P LV+ + ++ + +S
Sbjct: 55 LNPTNTVPLLVVSNINNTVSPSSASFSIGQS 85
>3jux_A Protein translocase subunit SECA; protein translocation, ATPase,
conformational change, peptide binding, ATP-binding,
cell inner membrane; HET: ADP; 3.10A {Thermotoga
maritima} PDB: 3din_A*
Length = 822
Score = 28.4 bits (64), Expect = 3.1
Identities = 12/71 (16%), Positives = 23/71 (32%), Gaps = 23/71 (32%)
Query: 147 EKRIKNLKKKVREITVQVTHPVEMPRQLNLKVSLKPPAPSELNFDNLSPEELEKRIKNLK 206
++ +K K V +I N E + + EL + LK
Sbjct: 8 KRILKKYAKMVSKI--------------NQI---------ESDLRSKKNSELIRLSMVLK 44
Query: 207 KKVREIKTLEQ 217
+KV + ++
Sbjct: 45 EKVNSFEDADE 55
Score = 27.3 bits (61), Expect = 7.6
Identities = 6/23 (26%), Positives = 12/23 (52%)
Query: 199 EKRIKNLKKKVREIKTLEQKIES 221
++ +K K V +I +E + S
Sbjct: 8 KRILKKYAKMVSKINQIESDLRS 30
>3i1m_C 30S ribosomal protein S3; ribosome structure, protein-RNA complex,
ribonucleoprotein, ribosomal protein, RNA-binding,
rRNA-binding, antibiotic resistance; 3.19A {Escherichia
coli k-12} PDB: 1vs7_C* 3e1a_O 3e1c_O 1vs5_C 3i1o_C
3i1q_C 3i1s_C 3i1z_C 3i21_C 3izv_G* 3izw_G* 3kc4_C
3or9_C 3ora_C 3sfs_C* 3uoq_C* 2qal_C* 1p6g_C 1p87_C
2aw7_C ...
Length = 233
Score = 28.0 bits (63), Expect = 3.2
Identities = 12/43 (27%), Positives = 21/43 (48%), Gaps = 10/43 (23%)
Query: 202 IKNLKKKVREIKTLEQKIESGEIKNPEKD----------QLEK 234
++ L+K V +I + +I E++ PE D QLE+
Sbjct: 84 VEKLRKVVADIAGVPAQINIAEVRKPELDAKLVADSITSQLER 126
>3qtc_A Pyrrolysyl-tRNA synthetase; aminoacyl-tRNA synthetase, ATP B
O-methyl tyrosine binding, magnesium binding,
aminoacylatio esterification; HET: 0A1 ANP; 1.75A
{Methanosarcina mazei} PDB: 2q7e_A* 2q7g_A* 2q7h_A*
2zim_A* 2zin_A* 2e3c_A* 2zcd_A* 2zce_A* 2zio_A*
Length = 290
Score = 27.5 bits (61), Expect = 4.4
Identities = 15/85 (17%), Positives = 31/85 (36%), Gaps = 7/85 (8%)
Query: 128 GLPPAPSELNFDNLSPEELEKRIKNLKKKVREITVQVTHPVEMPRQLNLKVSLKPPAPSE 187
GL P S + R++ L EI++ P R+L ++ +
Sbjct: 12 GLVPRGSHGASAPALTKSQTDRLEVLLNPKDEISLNSGKPF---RELESELLSRRKK--- 65
Query: 188 LNFDNLSPEELEKRIKNLKKKVREI 212
+ + EE E + L++++
Sbjct: 66 -DLQQIYAEERENYLGKLEREITRF 89
>1w1w_A Structural maintenance of chromosome 1; cohesin, chromosome
segregation, cell adhesion, kleisin, MIT cell cycle;
HET: ATG; 2.90A {Saccharomyces cerevisiae} SCOP:
c.37.1.12
Length = 430
Score = 27.4 bits (61), Expect = 5.0
Identities = 7/107 (6%), Positives = 31/107 (28%), Gaps = 4/107 (3%)
Query: 144 EELEKRIKNLKKKVREITVQVTHPVEMPRQLNLKVSLKPPAPSELNFDNLSPEELEKRIK 203
++E+ ++ + +V+ ++ ++ + + +K
Sbjct: 152 GDVEQIAAQSPVELSRMFEEVSGSIQYKKEYEELKEKIEKLSKSATESIKNRRRIHGELK 211
Query: 204 NLKKKVREIKTLEQKIESGEIKNPE----KDQLEKLQRKPDLLSEIM 246
K E+ + + ++ E+L+ + +
Sbjct: 212 TYKSPGLEVLFQGPRGSRYDEAEGRFEVINNETEQLKAEEKKILNQF 258
>2fqx_A Membrane lipoprotein TMPC; ABC transport system, ligand-binding
protein, guanosine, TP0319, transport protein; HET: GMP;
1.70A {Treponema pallidum} PDB: 2fqw_A* 2fqy_A*
Length = 318
Score = 27.3 bits (61), Expect = 5.0
Identities = 8/27 (29%), Positives = 14/27 (51%), Gaps = 3/27 (11%)
Query: 203 KNLKKKVREIKTLEQKIESGEIKNPEK 229
+ +K+R + +KI S EI P +
Sbjct: 289 SAVMEKIRSFE---EKIVSKEIVVPVR 312
>2v8t_A Manganese-containing pseudocatalase; manganese catalase,
oxidoreductase; 0.98A {Thermus thermophilus} PDB: 2v8u_A
2cwl_A
Length = 302
Score = 27.4 bits (60), Expect = 5.1
Identities = 10/58 (17%), Positives = 16/58 (27%), Gaps = 1/58 (1%)
Query: 101 RQAAQSIPIGLDPSHVKKPVNPQNPIPGLPPAPSELNFDNLSPEELEKRIKNLKKKVR 158
+ P V P+ +E P EL + K L +K +
Sbjct: 246 LIWKGASPEDGTEVVVVDGPPTGGPVFDAGHDAAEFA-PEFHPGELYEIAKKLYEKAK 302
>4akv_A Sorting nexin-33; transport protein, organelle biogenesis; 2.65A
{Homo sapiens}
Length = 386
Score = 27.4 bits (60), Expect = 5.4
Identities = 9/40 (22%), Positives = 17/40 (42%), Gaps = 3/40 (7%)
Query: 129 LPPAPSELNFDNLSPEELEKRIKNLKKKVREITVQVTHPV 168
+P P + + +EKR + L + + +HPV
Sbjct: 98 VPHLPEKQATGRFEEDFIEKRKRRLILWMDHM---TSHPV 134
>2vqe_C 30S ribosomal protein S3; tRNA-binding, rRNA-binding,
metal-binding, zinc-finger, translation; HET: TM2 PAR;
2.5A {Thermus thermophilus} PDB: 1gix_F* 1hnw_C* 1hnx_C*
1hnz_C* 1hr0_C 1ibk_C* 1ibl_C* 1ibm_C 1j5e_C 1jgo_F*
1jgp_F* 1jgq_F* 1ml5_F* 1n32_C* 1n33_C* 1n34_C 1n36_C
1xmo_C* 1xmq_C* 1xnq_C* ...
Length = 239
Score = 27.2 bits (61), Expect = 5.8
Identities = 7/43 (16%), Positives = 19/43 (44%), Gaps = 10/43 (23%)
Query: 202 IKNLKKKVREIKTLEQKIESGEIKNPEKD----------QLEK 234
I+ L++++ ++ + E++NP Q+E+
Sbjct: 84 IRVLREELAKLTGKNVALNVQEVQNPNLSAPLVAQRVAEQIER 126
>2g36_A Tryptophanyl-tRNA synthetase; TM0492, structural genomics, joint
center for struc genomics, JCSG, protein structure
initiative, PSI, ligase; HET: TRP; 2.50A {Thermotoga
maritima}
Length = 340
Score = 27.1 bits (61), Expect = 6.3
Identities = 6/26 (23%), Positives = 13/26 (50%)
Query: 203 KNLKKKVREIKTLEQKIESGEIKNPE 228
K L++ + + T ++ + NPE
Sbjct: 221 KELEQTILRMMTDPARVRRSDPGNPE 246
>2i0z_A NAD(FAD)-utilizing dehydrogenases; structural genomics, PSI-2,
protein structure initiative, midwest center for
structural genomics, MCSG; HET: FAD; 1.84A {Bacillus
cereus} SCOP: c.3.1.8 e.74.1.1
Length = 447
Score = 27.1 bits (61), Expect = 6.6
Identities = 17/106 (16%), Positives = 37/106 (34%), Gaps = 23/106 (21%)
Query: 140 NLSPEELEKRIKNLKKKVREITVQVTHPVEMPRQLNLKVSLKPPAPSELNFDNLSPEELE 199
+ E+L +R+ K+ + ++ +P + L + K +S E++
Sbjct: 301 EENSEQLFQRMLKQMKEDPKKGIKNVLKGYVPERYFLFLLEKNEIDGSEQAGQVSHEKIR 360
Query: 200 KRIKNLKK---------------------KVREI--KTLEQKIESG 222
+K+ K+ V+EI K + K +G
Sbjct: 361 ALVKDFKEFTVNVNGTQSIEKAFVTGGGVSVKEINPKEMSSKFTNG 406
>1k3x_A Endonuclease VIII; hydrolase/DNA, hydrolase-DNA complex; HET: BRU
PED; 1.25A {Escherichia coli} SCOP: a.156.1.2 b.113.1.1
g.39.1.8 PDB: 1k3w_A* 1q39_A 2ea0_A* 2oq4_A* 1q3c_A
2opf_A* 1q3b_A*
Length = 262
Score = 26.7 bits (60), Expect = 7.0
Identities = 9/34 (26%), Positives = 20/34 (58%), Gaps = 2/34 (5%)
Query: 191 DNLSPEELEKRIKNLKKKVREIKT--LEQKIESG 222
NL+PE +++R+ + + + R+ L+Q +G
Sbjct: 132 PNLTPEVVKERLLSPRFRNRQFAGLLLDQAFLAG 165
>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat
ATP binding, chloroplast, transferase; 2.35A
{Arabidopsis thaliana}
Length = 250
Score = 26.6 bits (59), Expect = 7.0
Identities = 11/50 (22%), Positives = 18/50 (36%), Gaps = 5/50 (10%)
Query: 192 NLSPEELEKRIKNLKKKVREIKTLEQKIESGEIKNPEKDQLEKL--QRKP 239
++ E L RI + R L ESG+ ++L + R
Sbjct: 149 DVPLEALAHRIAAVGTGSRP---LLHDDESGDTYTAALNRLSTIWDARGE 195
>1v2z_A Circadian clock protein KAIA homolog; all alpha, riken structural
genomics/proteomics initiative, structural genomics;
1.80A {Thermosynechococcus elongatus} SCOP: a.186.1.1
PDB: 1q6a_A 1q6b_A 1suy_A 1sv1_A
Length = 111
Score = 25.9 bits (57), Expect = 8.2
Identities = 8/44 (18%), Positives = 17/44 (38%), Gaps = 8/44 (18%)
Query: 186 SELNFDNLSPEELEKRIKNLKKKVREI--------KTLEQKIES 221
+ F +SP + K + L+ R I + ++I+
Sbjct: 2 TAFFFRRMSPADKRKLLDELRSIYRTIVLEYFNTDAKVNERIDE 45
>3pmo_A UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltr; lipid A
biosynthesis pathway, transferase; 1.30A {Pseudomonas
aeruginosa}
Length = 372
Score = 26.8 bits (60), Expect = 8.2
Identities = 3/27 (11%), Positives = 14/27 (51%), Gaps = 3/27 (11%)
Query: 197 ELEKRIKNLKKKVREIKTLEQKIESGE 223
++ +R++ L+K+ + + ++
Sbjct: 347 DMARRLQQLEKR---LAAVTSSGDASS 370
>3t7v_A Methylornithine synthase PYLB; TIM-barrel fold, mutase,
[4Fe-4S]-cluster, SAM, lysine, transferase; HET: SAM
MD0; 1.50A {Methanosarcina barkeri}
Length = 350
Score = 26.9 bits (60), Expect = 8.5
Identities = 8/32 (25%), Positives = 9/32 (28%), Gaps = 4/32 (12%)
Query: 119 PVNPQNPIPGLPPAPSELNFDNLSPEELEKRI 150
V P G P F + S K I
Sbjct: 235 RVMTFLPQEGTPLE----GFRDKSNLSELKII 262
>3thx_A DNA mismatch repair protein MSH2; ABC family ATPase, mismatch
recognition, mismatched unpaired DNA binding protein-DNA
complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 2o8c_A*
2o8d_A* 2o8f_A* 3thw_A* 2o8b_A* 3thy_A* 3thz_A* 2o8e_A*
Length = 934
Score = 26.9 bits (60), Expect = 8.7
Identities = 13/75 (17%), Positives = 26/75 (34%), Gaps = 13/75 (17%)
Query: 144 EELEKRIKNLKKKVREITVQVTHPVEMPRQLNLKVSLKPPAPSE-------LNFDNLSPE 196
ELE+ + + +I ++ L+ E + F +S E
Sbjct: 849 LELEEFQYIGESQGYDIMEPA------AKKCYLEREQGEKIIQEFLSKVKQMPFTEMSEE 902
Query: 197 ELEKRIKNLKKKVRE 211
+ ++K LK +V
Sbjct: 903 NITIKLKQLKAEVIA 917
>2ofy_A Putative XRE-family transcriptional regulator; transcription
regulator, structural genomics, PS protein structure
initiative; 1.70A {Rhodococcus SP} SCOP: a.35.1.3
Length = 86
Score = 25.3 bits (55), Expect = 9.1
Identities = 14/58 (24%), Positives = 23/58 (39%), Gaps = 15/58 (25%)
Query: 193 LSPEELE--KRIKNLKKKVREIKTLEQ-------------KIESGEIKNPEKDQLEKL 235
L+ EELE +R+ L + R ++ KIE+G I P + +
Sbjct: 6 LTAEELERGQRLGELLRSARGDMSMVTVAFDAGISVETLRKIETGRIATPAFFTIAAV 63
>3bbn_C Ribosomal protein S3; small ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 218
Score = 26.4 bits (59), Expect = 9.4
Identities = 12/52 (23%), Positives = 23/52 (44%), Gaps = 11/52 (21%)
Query: 202 IKNLKKKVREIKTLEQK---IESGEIKNPEKDQLEKLQRKPDLLSEIMALKL 250
+++LK V++ + I I P D P++L+E +A +L
Sbjct: 92 VEDLKINVQKELNCVNRKLNIAITRIAKPYGD--------PNILAEFIAGQL 135
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
0.310 0.133 0.376
Gapped
Lambda K H
0.267 0.0439 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,185,511
Number of extensions: 258610
Number of successful extensions: 1320
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1298
Number of HSP's successfully gapped: 123
Length of query: 267
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 175
Effective length of database: 4,133,061
Effective search space: 723285675
Effective search space used: 723285675
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 56 (26.1 bits)