RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16592
(132 letters)
>2ecl_A Ring-box protein 2; RNF7, ring domian, zinc-binding domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 81
Score = 60.3 bits (146), Expect = 2e-13
Identities = 17/37 (45%), Positives = 27/37 (72%)
Query: 76 NAVALWSWDMDMETCAICRNHLMDECILCQARDAQDE 112
+ +WSWD++ +TCAICR +MD C+ CQA + Q++
Sbjct: 4 GSSGMWSWDVECDTCAICRVQVMDACLRCQAENKQED 40
Score = 24.9 bits (54), Expect = 4.3
Identities = 4/20 (20%), Positives = 8/20 (40%)
Query: 75 FNAVALWSWDMDMETCAICR 94
F+ + W C +C+
Sbjct: 52 FHNCCMSLWVKQNNRCPLCQ 71
>4a0k_B E3 ubiquitin-protein ligase RBX1; ligase-DNA-binding protein-DNA
complex, DNA-binding protein- complex; HET: DNA 3DR;
5.93A {Mus musculus}
Length = 117
Score = 52.9 bits (126), Expect = 3e-10
Identities = 32/61 (52%), Positives = 40/61 (65%), Gaps = 2/61 (3%)
Query: 62 SEYPDVPRFTVRKFNAVALWSWDMDMETCAICRNHLMDECILCQARDAQDEPPPNGCTVA 121
+ RF V+K+NAVALW+WD+ ++ CAICRNH+MD CI CQA Q CTVA
Sbjct: 23 NSGAGKKRFEVKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQA--NQASATSEECTVA 80
Query: 122 W 122
W
Sbjct: 81 W 81
>3dpl_R Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST-virus
interaction, receptor, UBL conjugation, UBL conjugation
pathway, acetylation, cytoplasm; 2.60A {Homo sapiens}
SCOP: g.44.1.1 PDB: 3dqv_R 3rtr_B 1u6g_B 2hye_D* 4a0c_D
4a0l_F* 1ldj_B 1ldk_C 2lgv_A
Length = 106
Score = 51.0 bits (121), Expect = 1e-09
Identities = 27/55 (49%), Positives = 35/55 (63%)
Query: 61 RSEYPDVPRFTVRKFNAVALWSWDMDMETCAICRNHLMDECILCQARDAQDEPPP 115
+ RF V+K+NAVALW+WD+ ++ CAICRNH+MD CI CQA A
Sbjct: 11 TNSGAGKKRFEVKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEE 65
>2yjp_A Putative ABC transporter, periplasmic binding Pro amino acid;
transport protein, solute-binding protein; 2.26A
{Neisseria gonorrhoeae}
Length = 291
Score = 30.0 bits (68), Expect = 0.15
Identities = 12/59 (20%), Positives = 21/59 (35%), Gaps = 7/59 (11%)
Query: 1 MAKKSEPFHKKPKTPSAQTFSRSTWPI-MRK--LQIQELINEELQKMKEDRELNRTYKK 56
AK++ F ++K + +N E+ MK+D L Y+K
Sbjct: 219 WAKENPNFEVAIGNL----GPAEFIAPAVQKGNADLLNWVNGEIAAMKKDGRLKAAYEK 273
>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 = 30.4 bits (68), Expect = 0.19
Identities = 18/104 (17%), Positives = 31/104 (29%), Gaps = 33/104 (31%)
Query: 5 SEPFHKKPKTPSAQTFSRSTWPIMRKLQIQELINEELQKMKEDRELNRTYKKV------- 57
+ PFH S ++ +LIN++L +K + N ++
Sbjct: 424 ASPFH------S---------HLLVP--ASDLINKDL--VKNNVSFNAKDIQIPVYDTFD 464
Query: 58 -LDLRSEYPDVPRFTVRK-FNAVALWSWDMDMETCAICRNHLMD 99
DLR + V W T H++D
Sbjct: 465 GSDLRVLSGSISERIVDCIIRLPVKW-----ETTTQFKATHILD 503
Score = 27.3 bits (60), Expect = 1.6
Identities = 12/57 (21%), Positives = 19/57 (33%), Gaps = 21/57 (36%)
Query: 39 EELQKMKEDRELNRTYK-----------KVL-DLRSEYPDVPRFTVRKFNAVALWSW 83
EEL R+L +TY + L +L D + + N + W
Sbjct: 171 EEL------RDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLN---ILEW 218
>2v3u_A Glutamate receptor delta-2 subunit; postsynaptic membrane,
ionotropic glutamate receptors, transmembrane, membrane
protein; 1.74A {Rattus norvegicus} PDB: 2v3t_A
Length = 265
Score = 29.6 bits (66), Expect = 0.25
Identities = 1/23 (4%), Positives = 14/23 (60%)
Query: 34 QELINEELQKMKEDRELNRTYKK 56
+++ ++ + ++++ +++ K
Sbjct: 233 RDVFSQRILELQQSGDMDILKHK 255
>3aj7_A Oligo-1,6-glucosidase; (beta/alpha)8-barrel, hydrolase; 1.30A
{Saccharomyces cerevisiae} PDB: 3a4a_A* 3a47_A 3axi_A*
3axh_A*
Length = 589
Score = 29.5 bits (67), Expect = 0.27
Identities = 10/34 (29%), Positives = 17/34 (50%), Gaps = 1/34 (2%)
Query: 34 QELINEELQKMKEDRELNRTYKKVLDLRSEYPDV 67
+E IN E + + LN +K+ L R + D+
Sbjct: 476 REGINVEDEIKDPNSVLN-FWKEALKFRKAHKDI 508
>2vha_A Periplasmic binding transport protein; periplasmic binding protein,
ligand binding, ultrahigh resolution; HET: GLU; 1.00A
{Shigella flexneri} PDB: 2ia4_A*
Length = 287
Score = 29.3 bits (66), Expect = 0.32
Identities = 6/31 (19%), Positives = 18/31 (58%), Gaps = 2/31 (6%)
Query: 28 MRK--LQIQELINEELQKMKEDRELNRTYKK 56
+RK Q ++L+++ + +++ E + + K
Sbjct: 215 LRKDDPQFKKLMDDTIAQVQTSGEAEKWFDK 245
>3g3k_A Glutamate receptor, ionotropic kainate 2; membrane protein, cell
junction, cell membrane, glycoprotein, ION transport,
ionic channel, membrane; HET: GLU IPA; 1.24A {Rattus
norvegicus} PDB: 3g3j_A* 3g3i_A* 2i0b_A* 3g3h_A* 3g3g_A*
3g3f_A* 1s7y_A* 1s9t_A* 1sd3_A* 1tt1_A* 1s50_A* 2xxr_A*
2xxt_A* 2xxx_A* 2xxw_A* 2xxy_A* 2xxu_A* 2xxv_A* 3qxm_A*
2i0c_A* ...
Length = 259
Score = 29.2 bits (65), Expect = 0.33
Identities = 5/23 (21%), Positives = 13/23 (56%)
Query: 34 QELINEELQKMKEDRELNRTYKK 56
++ I + K++E +L+ +K
Sbjct: 228 RDKITLAILKLQEQGKLHMMKEK 250
>1mqi_A Glutamate receptor 2; GLUR2, ligand binding core, S1S2, partial
agonist, WILLARDIINES, fluoro-WILLARDIINE, membrane
protein; HET: FWD; 1.35A {Rattus norvegicus} SCOP:
c.94.1.1 PDB: 1ftj_A* 1ftl_A* 1fto_A 1fw0_A* 1m5b_A*
1ftm_A* 1m5c_A* 1mm6_A* 1mm7_A* 1mqg_A* 1m5e_A* 1mqj_A*
1ms7_A* 1mxu_A* 1mxv_A 1mxw_A 1mxx_A 1mxy_A 1mxz_A
1my0_A ...
Length = 263
Score = 28.8 bits (64), Expect = 0.50
Identities = 5/22 (22%), Positives = 10/22 (45%)
Query: 35 ELINEELQKMKEDRELNRTYKK 56
+N + K+ E L++ K
Sbjct: 232 NAVNLAVLKLNEQGLLDKLKNK 253
>4eq9_A ABC transporter substrate-binding protein-amino A transport;
structural genomics, niaid; HET: GSH; 1.40A
{Streptococcus pneumoniae}
Length = 246
Score = 27.7 bits (62), Expect = 0.99
Identities = 4/34 (11%), Positives = 21/34 (61%), Gaps = 2/34 (5%)
Query: 25 WPIMRK--LQIQELINEELQKMKEDRELNRTYKK 56
+P++ + +++ +++ ++++ +D L + K+
Sbjct: 199 YPLLAQGQDELKSFVDKRIKELYKDGTLEKLSKQ 232
>1xt8_A Putative amino-acid transporter periplasmic solut protein; ABC
transport, cysteine uptake; 2.00A {Campylobacter jejuni}
SCOP: c.94.1.1
Length = 292
Score = 27.7 bits (62), Expect = 0.99
Identities = 9/61 (14%), Positives = 25/61 (40%), Gaps = 7/61 (11%)
Query: 1 MAKKSEPFHKKPKTPSAQTFSRSTWPI-MRK--LQIQELINEELQKMKEDRELNRTYKKV 57
K F K ++ ++K +++E I+ + K+ +++ ++ Y +
Sbjct: 208 WVKDHPDFKMGIKEL----GNKDVIAPAVKKGDKELKEFIDNLIIKLGQEQFFHKAYDET 263
Query: 58 L 58
L
Sbjct: 264 L 264
>1ii5_A SLR1257 protein; membrane protein; HET: GLU; 1.60A {Synechocystis
SP} SCOP: c.94.1.1 PDB: 1iit_A 1iiw_A
Length = 233
Score = 27.6 bits (62), Expect = 1.0
Identities = 5/23 (21%), Positives = 11/23 (47%)
Query: 34 QELINEELQKMKEDRELNRTYKK 56
Q+ IN E+ + R + ++
Sbjct: 201 QKTINVEMLNLLYSRVIAEFTER 223
>2pyy_A Ionotropic glutamate receptor bacterial homologue; GLUR0 ligand
binding domain, transport protein; HET: GLU; 2.10A
{Nostoc punctiforme}
Length = 228
Score = 27.2 bits (61), Expect = 1.5
Identities = 7/22 (31%), Positives = 11/22 (50%)
Query: 35 ELINEELQKMKEDRELNRTYKK 56
+ IN+ L +KE+ Y K
Sbjct: 198 KPINQALLNLKENGTYQSLYDK 219
>2pvu_A ARTJ; basic amino acid binding protein, ABC transport system, THER
bacterium, transport protein; HET: LYS; 1.79A
{Geobacillus stearothermophilus} PDB: 2q2a_A* 2q2c_A*
Length = 272
Score = 26.9 bits (60), Expect = 2.0
Identities = 5/23 (21%), Positives = 11/23 (47%)
Query: 34 QELINEELQKMKEDRELNRTYKK 56
+ ++E L+ + + YKK
Sbjct: 237 KAKVDEALKNVINSGKYTEIYKK 259
>2q88_A EHUB, putative ABC transporter amino acid-binding prote;
substrate-binding protein, compatible solues,
ABC-transporte osmoprotection; HET: 4CS; 1.90A
{Sinorhizobium meliloti} PDB: 2q89_A*
Length = 257
Score = 26.9 bits (60), Expect = 2.1
Identities = 6/20 (30%), Positives = 10/20 (50%)
Query: 37 INEELQKMKEDRELNRTYKK 56
+ EL K+KE E + +
Sbjct: 218 FDVELAKLKESGEFAKIIEP 237
>1twf_A B220, DNA-directed RNA polymerase II largest subunit;
transcription, mRNA, multiprotein complex; HET: UTP;
2.30A {Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB:
1i3q_A 1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A
1r9s_A* 1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A*
1twh_A* 1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ...
Length = 1733
Score = 27.0 bits (59), Expect = 2.2
Identities = 9/30 (30%), Positives = 19/30 (63%)
Query: 27 IMRKLQIQELINEELQKMKEDRELNRTYKK 56
I+ L++Q L++EE +++ +DR+ R
Sbjct: 919 ILGDLKLQVLLDEEYKQLVKDRKFLREVFV 948
>2rc8_A Glutamate [NMDA] receptor subunit 3A; membrane protein, cell
junction, glycoprotein, ION transport channel,
magnesium; 1.45A {Rattus norvegicus} PDB: 2rc7_A 2rc9_A
2rca_A 2rcb_A
Length = 294
Score = 26.6 bits (58), Expect = 2.9
Identities = 4/22 (18%), Positives = 10/22 (45%)
Query: 35 ELINEELQKMKEDRELNRTYKK 56
I+E + + K ++ + K
Sbjct: 264 SNISELISQYKSHGFMDVLHDK 285
>2yln_A Putative ABC transporter, periplasmic binding Pro amino acid;
transport protein, solute-BIND protein; HET: CYS GOL;
1.12A {Neisseria gonorrhoeae} PDB: 3zsf_A
Length = 283
Score = 26.6 bits (59), Expect = 3.0
Identities = 3/23 (13%), Positives = 10/23 (43%)
Query: 34 QELINEELQKMKEDRELNRTYKK 56
+ + ++K D L + ++
Sbjct: 252 VAKFSTAINELKADGTLKKLGEQ 274
>2iee_A ORF2, probable ABC transporter extracellular-binding protein YCKB;
SR574, NESG, X-RAY, structural genomics, PSI-2; 2.20A
{Bacillus subtilis}
Length = 271
Score = 26.1 bits (58), Expect = 3.2
Identities = 10/31 (32%), Positives = 19/31 (61%), Gaps = 2/31 (6%)
Query: 28 MRK--LQIQELINEELQKMKEDRELNRTYKK 56
M+K +Q+ +NE L++M +D L + K+
Sbjct: 213 MKKSNAALQKKMNEALKEMSKDGSLTKLSKQ 243
>4f3p_A Glutamine-binding periplasmic protein; ssgcid, structural genomics,
GLUT seattle structural genomics center for infectious
disease; 2.40A {Burkholderia pseudomallei}
Length = 249
Score = 26.1 bits (58), Expect = 3.3
Identities = 9/23 (39%), Positives = 12/23 (52%)
Query: 34 QELINEELQKMKEDRELNRTYKK 56
+N EL +MK D + YKK
Sbjct: 217 VAKVNAELARMKADGRYAKIYKK 239
>2a5s_A N-methyl-D-aspartate receptor nmdar2A subunit, NMDA receptor
nmdar2A; protein-ligand complex, metal
transport,membrane protein; HET: GLU; 1.70A {Rattus
norvegicus} SCOP: c.94.1.1 PDB: 2a5t_B* 3oen_A* 3oel_A*
3oem_A* 3oek_A*
Length = 284
Score = 26.1 bits (57), Expect = 3.5
Identities = 4/22 (18%), Positives = 7/22 (31%)
Query: 35 ELINEELQKMKEDRELNRTYKK 56
I+ L + D E+
Sbjct: 255 RQIDLALLQFVGDGEMEELETL 276
>3kbr_A Cyclohexadienyl dehydratase; pseudomonas aeruginos structural
genomics, PSI-2, protein structure initiative; HET: EPE;
1.66A {Pseudomonas aeruginosa}
Length = 239
Score = 26.1 bits (58), Expect = 3.7
Identities = 4/49 (8%), Positives = 15/49 (30%), Gaps = 2/49 (4%)
Query: 10 KKPKTPSAQTFSRSTWPIMRKL--QIQELINEELQKMKEDRELNRTYKK 56
+ Q F + + + +++ L ++ L + +
Sbjct: 186 ELCAVHPQQPFDFAEKAYLLPRDEAFKRYVDQWLHIAEQSGLLRQRMEH 234
>3gi7_A Secreted protein of unknown function DUF1311; structural
genomics, joint center for STRU genomics, JCSG, protein
structure initiative, PSI-2; 1.85A {Pseudomonas putida}
Length = 122
Score = 25.6 bits (55), Expect = 3.8
Identities = 9/36 (25%), Positives = 18/36 (50%), Gaps = 1/36 (2%)
Query: 47 DRELNRTYKKVLD-LRSEYPDVPRFTVRKFNAVALW 81
+REL Y ++++ +R ++ D R A +W
Sbjct: 31 ERELQSAYDELIERMRDQFGDEAGLMSRIEAAEKVW 66
>1vdd_A Recombination protein RECR; helix-hairpin-helix, zinc finger,
toprim, walker B ATP binding motif; 2.50A {Deinococcus
radiodurans} SCOP: e.49.1.1 PDB: 2v1c_A
Length = 228
Score = 26.0 bits (58), Expect = 4.0
Identities = 7/26 (26%), Positives = 12/26 (46%), Gaps = 3/26 (11%)
Query: 86 DMETCAICRNHLMDECILC---QARD 108
D E C +C + D+ +C + D
Sbjct: 65 DAEKCDVCADPSRDQRTICVVEEPGD 90
>2bhu_A Maltooligosyltrehalose trehalohydrolase; alpha-amylase,
protein-carbohydrate complex, desiccation resistance;
HET: TRS PGE; 1.1A {Deinococcus radiodurans} SCOP:
b.1.18.2 b.71.1.1 c.1.8.1 PDB: 2bhy_A* 2bhz_A* 2bxy_A*
2bxz_A* 2by0_A* 2by1_A* 2by2_A* 2by3_A*
Length = 602
Score = 26.1 bits (58), Expect = 4.4
Identities = 15/76 (19%), Positives = 21/76 (27%), Gaps = 9/76 (11%)
Query: 12 PKTPSAQTFSRSTWPIMRKLQIQELINEELQKMKED-RELNRTYKKVLDLRSEYPDVPRF 70
P + QTF S KL E E + R+L R ++ L +
Sbjct: 484 PDPQAEQTFLNS------KLNWAEREGGEHARTLRLYRDLLRLRREDPVLHN--RQRENL 535
Query: 71 TVRKFNAVALWSWDMD 86
T V
Sbjct: 536 TTGHDGDVLWVRTVTG 551
>1pb7_A N-methyl-D-aspartate receptor subunit 1; ligand binding receptor,
NR1, ligand binding protein; 1.35A {Rattus norvegicus}
SCOP: c.94.1.1 PDB: 1pbq_A* 1y1m_A 1y1z_A 1y20_A 2a5t_A*
1pb8_A 1pb9_A
Length = 292
Score = 25.8 bits (56), Expect = 5.2
Identities = 3/22 (13%), Positives = 9/22 (40%)
Query: 35 ELINEELQKMKEDRELNRTYKK 56
+ ++ + K E+ + K
Sbjct: 262 QNVSLSILKSHENGFMEDLDKT 283
>2o1m_A Probable amino-acid ABC transporter extracellular-binding protein
YTMK; NESG X-RAY O34852 YTMK_bacsu, structural genomics,
PSI-2; 2.00A {Bacillus subtilis}
Length = 258
Score = 25.7 bits (57), Expect = 5.4
Identities = 8/32 (25%), Positives = 16/32 (50%), Gaps = 2/32 (6%)
Query: 27 IMRK--LQIQELINEELQKMKEDRELNRTYKK 56
+ K + + I++ LQ++ +D L R K
Sbjct: 208 MFNKNEQTLSDDIDKALQEIIDDGTLKRLSLK 239
>1v87_A Deltex protein 2; ring-H2 domain, zinc-binding domain, notch
signaling, structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Mus musculus}
SCOP: g.44.1.1
Length = 114
Score = 25.2 bits (54), Expect = 5.4
Identities = 10/47 (21%), Positives = 16/47 (34%), Gaps = 3/47 (6%)
Query: 68 PRFTVRKFNAVALWSWDMDMETCAICRNHLMDECILCQARDAQDEPP 114
P +RK+ + + E C IC L D++ P
Sbjct: 9 PEQVIRKYTEELKVAPE---EDCIICMEKLAVASGYSDMTDSKALGP 52
>1p77_A Shikimate 5-dehydrogenase; NADPH, oxidoreductase; HET: ATR; 1.95A
{Haemophilus influenzae} SCOP: c.2.1.7 c.58.1.5 PDB:
1p74_A*
Length = 272
Score = 25.6 bits (57), Expect = 5.4
Identities = 7/35 (20%), Positives = 16/35 (45%)
Query: 51 NRTYKKVLDLRSEYPDVPRFTVRKFNAVALWSWDM 85
NRT+ K +L + +++ L ++D+
Sbjct: 149 NRTFSKTKELAERFQPYGNIQAVSMDSIPLQTYDL 183
>2k7r_A Primosomal protein DNAI; DNAI N-terminal domain, helicase-loading
protein, ATP- binding, DNA replication,
nucleotide-binding, primosome; NMR {Bacillus subtilis}
Length = 106
Score = 24.8 bits (54), Expect = 5.6
Identities = 7/36 (19%), Positives = 15/36 (41%)
Query: 35 ELINEELQKMKEDRELNRTYKKVLDLRSEYPDVPRF 70
E I LQ + + + +++ + + DV F
Sbjct: 2 EPIGRSLQGVTGRPDFQKRLEQMKEKVMKDQDVQAF 37
>1j0h_A Neopullulanase; beta-alpha-barrels, hydrolase; 1.90A {Geobacillus
stearothermophilus} SCOP: b.1.18.2 b.71.1.1 c.1.8.1 PDB:
1j0i_A* 1j0j_A* 1j0k_A* 1sma_A 1gvi_A*
Length = 588
Score = 25.8 bits (57), Expect = 5.6
Identities = 7/23 (30%), Positives = 17/23 (73%)
Query: 43 KMKEDRELNRTYKKVLDLRSEYP 65
M++++EL++ K+++ LR +Y
Sbjct: 479 PMQQNKELHQHVKQLIALRKQYR 501
>1yae_A Glutamate receptor, ionotropic kainate 2; kainate receptor,
membrane protein; HET: NAG FUC DOQ; 3.11A {Rattus
norvegicus} SCOP: c.94.1.1
Length = 312
Score = 25.5 bits (55), Expect = 6.0
Identities = 4/40 (10%), Positives = 17/40 (42%), Gaps = 2/40 (5%)
Query: 19 TFSRSTWPIMRKL--QIQELINEELQKMKEDRELNRTYKK 56
+ + + ++ I + +++E+ +L+ +K
Sbjct: 245 LIDSKGYGVGTPMGSPYRDKITIAILQLQEEGKLHMMKEK 284
>2z1k_A (NEO)pullulanase; hydrolase, structural genomics, NPPSFA, national
project on structural and functional analyses; HET: GLC;
2.30A {Thermus thermophilus}
Length = 475
Score = 25.7 bits (57), Expect = 6.0
Identities = 7/21 (33%), Positives = 13/21 (61%)
Query: 45 KEDRELNRTYKKVLDLRSEYP 65
+ ++L T K++ LR E+P
Sbjct: 372 RWQKDLRETVKRLARLRKEHP 392
>3h7m_A Sensor protein; histidine kinase sensor domain, kinase,
phosphoprotein, transferase; 2.40A {Geobacter
sulfurreducens}
Length = 234
Score = 25.3 bits (56), Expect = 6.0
Identities = 3/22 (13%), Positives = 8/22 (36%)
Query: 35 ELINEELQKMKEDRELNRTYKK 56
+E L +++ + K
Sbjct: 206 ARFSEGLAILRKTGQYEAIRAK 227
>3iuk_A Uncharacterized protein; PF05960.1, DUF885, M32
carboxypeptidase-like fold, PSI, MCSG structural
genomics, protein structure initiative; 1.85A
{Arthrobacter aurescens}
Length = 562
Score = 25.7 bits (56), Expect = 6.6
Identities = 8/32 (25%), Positives = 15/32 (46%), Gaps = 4/32 (12%)
Query: 53 TYK----KVLDLRSEYPDVPRFTVRKFNAVAL 80
+YK +R+E F ++ F++ AL
Sbjct: 516 SYKVGQRLWEQIRAELESREGFDLKSFHSKAL 547
>3n0l_A Serine hydroxymethyltransferase; alpha beta class, 3-layer(ABA)
sandwich, CSGI transferase, structural genomics; HET:
MSE; 1.80A {Campylobacter jejuni}
Length = 417
Score = 25.6 bits (57), Expect = 6.6
Identities = 4/34 (11%), Positives = 13/34 (38%)
Query: 32 QIQELINEELQKMKEDRELNRTYKKVLDLRSEYP 65
+ I + L + ++ +++ L S +
Sbjct: 377 IVSNYIADILDDVNNEKLQENIKQELKKLASNFI 410
>2wc7_A Alpha amylase, catalytic region; CD/PUL-hydrolyzing enzymes,
hydrolase, glycosidase, neopullu; 2.37A {Nostoc
punctiforme} PDB: 2wcs_A 2wkg_A
Length = 488
Score = 25.4 bits (56), Expect = 7.0
Identities = 5/21 (23%), Positives = 14/21 (66%)
Query: 45 KEDRELNRTYKKVLDLRSEYP 65
++E+ T+++++ +R YP
Sbjct: 379 NWNQEIFNTHRQLITIRQTYP 399
>3gbx_A Serine hydroxymethyltransferase; structural genomics, IDP01011,
serine hydroxymethyltransfera salmonella typhimurium.;
HET: MSE; 1.80A {Salmonella typhimurium} PDB: 1dfo_A*
3g8m_A* 1eqb_A*
Length = 420
Score = 25.2 bits (56), Expect = 7.3
Identities = 7/34 (20%), Positives = 18/34 (52%)
Query: 32 QIQELINEELQKMKEDRELNRTYKKVLDLRSEYP 65
++ + + L + ++ + R KVLD+ + +P
Sbjct: 384 ELAGWMCDVLDNINDEATIERVKAKVLDICARFP 417
>1ea9_C Cyclomaltodextrinase; hydrolase, glycosidase; 3.2A {Bacillus SP}
SCOP: b.1.18.2 b.71.1.1 c.1.8.1
Length = 583
Score = 25.4 bits (56), Expect = 8.1
Identities = 7/21 (33%), Positives = 12/21 (57%)
Query: 45 KEDRELNRTYKKVLDLRSEYP 65
K D++L Y+ V+ LR +
Sbjct: 478 KHDKDLFAFYQTVIRLRQAHA 498
>3d3y_A Uncharacterized protein; APC29635, conserved protein, enterococcus
faecalis V583, STR genomics, PSI-2, protein structure
initiative; 1.95A {Enterococcus faecalis}
Length = 425
Score = 25.4 bits (56), Expect = 8.2
Identities = 8/28 (28%), Positives = 16/28 (57%), Gaps = 5/28 (17%)
Query: 35 ELINEELQKMKE----DRELNRTYKKVL 58
LI+ EL+ ++ + E+ +T K +L
Sbjct: 331 RLISTELENIRLGKIRELEIEQT-KAML 357
>3del_B Arginine binding protein; alpha and beta protein (A/B), periplasmic
protein, arginine protein binding, transport protein;
1.92A {Chlamydia trachomatis}
Length = 242
Score = 24.9 bits (55), Expect = 8.3
Identities = 4/23 (17%), Positives = 11/23 (47%)
Query: 34 QELINEELQKMKEDRELNRTYKK 56
I +Q+++++ L +K
Sbjct: 207 ALKIEAAVQEIRKEGVLAELEQK 229
>4aee_A Alpha amylase, catalytic region; hydrolase, hyperthermostable,
cyclodextrin hydrolase, GH13; 2.28A {Staphylothermus
marinus}
Length = 696
Score = 25.1 bits (55), Expect = 8.4
Identities = 5/21 (23%), Positives = 8/21 (38%)
Query: 45 KEDRELNRTYKKVLDLRSEYP 65
D EL KK++ +
Sbjct: 592 NWDLELYEHIKKLIRIYKSCR 612
>3kzg_A Arginine 3RD transport system periplasmic binding protein; arginine
transport system, protein structure initiative II(PSI
II); 2.06A {Legionella pneumophila subsp}
Length = 237
Score = 24.9 bits (55), Expect = 8.4
Identities = 7/23 (30%), Positives = 12/23 (52%)
Query: 34 QELINEELQKMKEDRELNRTYKK 56
+ IN+ L +M+ D R Y +
Sbjct: 205 IKKINKILLEMEADGTYLRLYSE 227
>1nyt_A Shikimate 5-dehydrogenase; alpha/beta domains, WIDE cleft
separation, oxidoreductase; HET: NAP; 1.50A {Escherichia
coli} SCOP: c.2.1.7 c.58.1.5
Length = 271
Score = 24.8 bits (55), Expect = 9.1
Identities = 5/35 (14%), Positives = 12/35 (34%)
Query: 51 NRTYKKVLDLRSEYPDVPRFTVRKFNAVALWSWDM 85
NRT + +L + + + +D+
Sbjct: 149 NRTVSRAEELAKLFAHTGSIQALSMDELEGHEFDL 183
>1wdn_A GLNBP, glutamine binding protein; closed form, complex, peptide,
complex (binding protein/peptide); 1.94A {Escherichia
coli} SCOP: c.94.1.1 PDB: 1ggg_A
Length = 226
Score = 24.9 bits (55), Expect = 9.8
Identities = 7/22 (31%), Positives = 13/22 (59%)
Query: 35 ELINEELQKMKEDRELNRTYKK 56
+ +N L+ ++E+ N YKK
Sbjct: 198 DKVNGALKTLRENGTYNEIYKK 219
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 0.131 0.414
Gapped
Lambda K H
0.267 0.0750 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,983,326
Number of extensions: 105205
Number of successful extensions: 394
Number of sequences better than 10.0: 1
Number of HSP's gapped: 392
Number of HSP's successfully gapped: 69
Length of query: 132
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 49
Effective length of database: 4,384,350
Effective search space: 214833150
Effective search space used: 214833150
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: 52 (23.8 bits)