RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780748|ref|YP_003065161.1| integration host factor, beta subunit [Candidatus Liberibacter asiaticus str. psy62] (100 letters) >1owf_B IHF-beta, integration HOST factor beta-subunit; protein-DNA recognition, indirect readout, DNA bending, minor groove; 1.95A {Escherichia coli} SCOP: a.55.1.1 PDB: 1ouz_B 2ht0_B 1ihf_B 1owg_B Length = 94 Score = 95.9 bits (239), Expect = 2e-21 Identities = 39/91 (42%), Positives = 51/91 (56%) Query: 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARL 60 M KS LI +A + + + VE V +LE M LA G R+ IRGFGSFS+ RA R Sbjct: 1 MTKSELIERLATQQSHIPAKTVEDAVKEMLEHMASTLAQGERIAIRGFGSFSLHYRAPRT 60 Query: 61 ARAPLAQKVISVEEKMVPFFRAGKNLKERLN 91 R P + +E K VP F+ GK L++R N Sbjct: 61 GRNPKTGDKVELEGKYVPHFKPGKELRDRAN 91 >1exe_A Transcription factor 1; beta ribbon ARMS, DNA-binding, DNA-bending protein; NMR {Bacillus phage SPO1} SCOP: a.55.1.1 PDB: 1wtu_A Length = 99 Score = 86.0 bits (213), Expect = 2e-18 Identities = 23/92 (25%), Positives = 43/92 (46%), Gaps = 1/92 (1%) Query: 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARL 60 M K+ LI IA+ L V K++ + +T+ +A G +V++ GF + R AR Sbjct: 1 MNKTELIKAIAQDT-GLTQVSVSKMLASFEKIITETVAKGDKVQLTGFLNIKPVARQARK 59 Query: 61 ARAPLAQKVISVEEKMVPFFRAGKNLKERLNS 92 P Q+ + + + + G++LK+ Sbjct: 60 GFNPQTQEALEIAPSVGVSVKPGESLKKAAEG 91 >1p71_A DNA-binding protein HU; protein-DNA complex, DNA bending, DNA binding protein/DNA complex; 1.90A {Anabaena SP} SCOP: a.55.1.1 PDB: 1p51_A 1p78_A Length = 94 Score = 85.6 bits (212), Expect = 2e-18 Identities = 29/95 (30%), Positives = 52/95 (54%), Gaps = 1/95 (1%) Query: 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARL 60 M K L+ +A+K + + + ++ LE + +A+++G +V + GFGSF R+R AR Sbjct: 1 MNKGELVDAVAEKA-SVTKKQADAVLTAALETIIEAVSSGDKVTLVGFGSFESRERKARE 59 Query: 61 ARAPLAQKVISVEEKMVPFFRAGKNLKERLNSPDS 95 R P + + + VP F AGK +E++ P + Sbjct: 60 GRNPKTNEKMEIPATRVPAFSAGKLFREKVAPPKA 94 >3c4i_A DNA-binding protein HU homolog; dimerization by four helix bundle interaction, DNA condensation; 2.04A {Mycobacterium tuberculosis} Length = 99 Score = 83.7 bits (207), Expect = 9e-18 Identities = 29/91 (31%), Positives = 47/91 (51%), Gaps = 1/91 (1%) Query: 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARL 60 M K+ LI + +K + + V +++ + +A+ G V I GFG F R+RAAR+ Sbjct: 1 MNKAELIDVLTQKLG-SDRRQATAAVENVVDTIVRAVHKGDSVTITGFGVFEQRRRAARV 59 Query: 61 ARAPLAQKVISVEEKMVPFFRAGKNLKERLN 91 AR P + + V+ VP FR G K ++ Sbjct: 60 ARNPRTGETVKVKPTSVPAFRPGAQFKAVVS 90 >1hue_A HU protein; DNA-binding; NMR {Geobacillus stearothermophilus} SCOP: a.55.1.1 PDB: 1huu_A Length = 90 Score = 83.2 bits (206), Expect = 1e-17 Identities = 33/90 (36%), Positives = 54/90 (60%), Gaps = 1/90 (1%) Query: 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARL 60 M K+ LI +A+ L+ +D K V+ + + +T+AL G +V++ GFG+F VR+RAAR Sbjct: 1 MNKTELINAVAET-SGLSKKDATKAVDAVFDSITEALRKGDKVQLIGFGNFEVRERAARK 59 Query: 61 ARAPLAQKVISVEEKMVPFFRAGKNLKERL 90 R P + + + VP F+ GK LK+ + Sbjct: 60 GRNPQTGEEMEIPASKVPAFKPGKALKDAV 89 >1owf_A IHF-alpha, integration HOST factor alpha-subunit; protein-DNA recognition, indirect readout, DNA bending, minor groove; 1.95A {Escherichia coli} SCOP: a.55.1.1 PDB: 1ouz_A 1ihf_A 1owg_A 2ht0_A Length = 99 Score = 83.2 bits (206), Expect = 1e-17 Identities = 28/92 (30%), Positives = 52/92 (56%), Gaps = 1/92 (1%) Query: 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARL 60 + K+ + + K L+ +D +++V + EE+ +AL NG +V++ GFG+F +R + R Sbjct: 3 LTKAEMSEYLFDKL-GLSKRDAKELVELFFEEIRRALENGEQVKLSGFGNFDLRDKNQRP 61 Query: 61 ARAPLAQKVISVEEKMVPFFRAGKNLKERLNS 92 R P + I + + V FR G+ LK R+ + Sbjct: 62 GRNPKTGEDIPITARRVVTFRPGQKLKSRVEN 93 >1mul_A NS2, HU-2, DNA binding protein HU-alpha; histone-like; HET: DNA; 2.30A {Escherichia coli} SCOP: a.55.1.1 PDB: 2o97_A Length = 90 Score = 82.8 bits (205), Expect = 2e-17 Identities = 32/90 (35%), Positives = 48/90 (53%), Gaps = 1/90 (1%) Query: 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARL 60 M K+ LI IA+K +L+ + + L +T++L G V++ GFG+F V RA R Sbjct: 1 MNKTQLIDVIAEK-AELSKTQAKAALESTLAAITESLKEGDAVQLVGFGTFKVNHRAERT 59 Query: 61 ARAPLAQKVISVEEKMVPFFRAGKNLKERL 90 R P K I + VP F +GK LK+ + Sbjct: 60 GRNPQTGKEIKIAAANVPAFVSGKALKDAV 89 >2o97_B NS1, HU-1, DNA-binding protein HU-beta; heterodimer, DNA structure, DNA supercoiling, E. coli; 2.45A {Escherichia coli} SCOP: a.55.1.1 Length = 90 Score = 75.3 bits (185), Expect = 3e-15 Identities = 34/91 (37%), Positives = 53/91 (58%), Gaps = 1/91 (1%) Query: 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARL 60 M KS LI IA ++ + ++ ++ +T++L G V + GFG+F+V++RAAR Sbjct: 1 MNKSQLIDKIAAG-ADISKAAAGRALDAIIASVTESLKEGDDVALVGFGTFAVKERAART 59 Query: 61 ARAPLAQKVISVEEKMVPFFRAGKNLKERLN 91 R P K I++ VP FRAGK LK+ +N Sbjct: 60 GRNPQTGKEITIAAAKVPSFRAGKALKDAVN 90 >2np2_A HBB; protein-DNA complex, DNA-binding protein, DNA-bending protein, dnabii family, HU/IHF family, DNA binding protein/DNA complex; 3.02A {Borrelia burgdorferi} Length = 108 Score = 74.9 bits (184), Expect = 4e-15 Identities = 34/97 (35%), Positives = 52/97 (53%), Gaps = 5/97 (5%) Query: 1 MIKSSLIGTIAKK----NPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKR 56 + KS ++ IA N KL + + +++ EE+ L + +E R FG+F VRKR Sbjct: 9 VTKSDIVDQIALNIKNNNLKLEKKYIRLVIDAFFEELKSNLCSNNVIEFRSFGTFEVRKR 68 Query: 57 AARL-ARAPLAQKVISVEEKMVPFFRAGKNLKERLNS 92 RL AR P + + V + V +FR GK+LKER+ Sbjct: 69 KGRLNARNPQTGEYVKVLDHHVAYFRPGKDLKERVWG 105 >1b8z_A Protein (histonelike protein HU); thermostable DNA binding protein; 1.60A {Thermotoga maritima} SCOP: a.55.1.1 PDB: 1riy_A Length = 90 Score = 72.2 bits (177), Expect = 3e-14 Identities = 42/90 (46%), Positives = 59/90 (65%), Gaps = 1/90 (1%) Query: 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARL 60 M K LI +AKK +DV+ I++ +LE +T+ALA G +V+I GFGSF VRK AAR Sbjct: 1 MNKKELIDRVAKKA-GAKKKDVKLILDTILETITEALAKGEKVQIVGFGSFEVRKAAARK 59 Query: 61 ARAPLAQKVISVEEKMVPFFRAGKNLKERL 90 P +K I++ E+ VP F+ GK LKE++ Sbjct: 60 GVNPQTRKPITIPERKVPKFKPGKALKEKV 89 >2iie_A Integration HOST factor; DNA kinking, bending, U-turn, intercalation, divalent, metal, recombination/DNA complex; HET: DNA; 2.41A {Escherichia coli} PDB: 2iif_A* Length = 204 Score = 71.1 bits (174), Expect = 5e-14 Identities = 28/92 (30%), Positives = 52/92 (56%), Gaps = 1/92 (1%) Query: 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARL 60 + K+ + + K L+ +D +++V + EE+ +AL NG +V++ GFG+F +R + R Sbjct: 47 LTKAEMSEYLFDKL-GLSKRDAKELVELFFEEIRRALENGEQVKLSGFGNFDLRDKNQRP 105 Query: 61 ARAPLAQKVISVEEKMVPFFRAGKNLKERLNS 92 R P + I + + V FR G+ LK R+ + Sbjct: 106 GRNPKTGEDIPITARRVVTFRPGQKLKSRVEN 137 Score = 57.6 bits (139), Expect = 6e-10 Identities = 27/70 (38%), Positives = 37/70 (52%) Query: 27 NMLLEEMTQALANGGRVEIRGFGSFSVRKRAARLARAPLAQKVISVEEKMVPFFRAGKNL 86 L+ + G R+EIRGFGSFS+ RA R R P + +E K VP F+ GK L Sbjct: 128 GQKLKSRVENAGGGERIEIRGFGSFSLHYRAPRTGRNPKTGDKVELEGKYVPHFKPGKEL 187 Query: 87 KERLNSPDST 96 ++R N + Sbjct: 188 RDRANIYGGS 197 >2pff_B Fatty acid synthase subunit beta; fatty acid synthase, acyl-carrier-protein, beta-ketoacyl reductase, beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces cerevisiae} Length = 2006 Score = 41.5 bits (97), Expect = 5e-05 Identities = 21/116 (18%), Positives = 40/116 (34%), Gaps = 38/116 (32%) Query: 17 LNYQDVEKIVNML---LEEMTQ---ALANGGR--V------EIRGFGSFSVR--KRAARL 60 L + V+ VN L Q +L NG + V + G ++R K + L Sbjct: 344 LTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNL-TLRKAKAPSGL 402 Query: 61 --ARAPLAQ-KV--------ISVEEKMVPFF-----RAGKNLKERLNSPDSTLSNS 100 +R P ++ K+ ++ PF A + + L + + + Sbjct: 403 DQSRIPFSERKLKFSNRFLPVA-----SPFHSHLLVPASDLINKDLVKNNVSFNAK 453 Score = 24.5 bits (53), Expect = 5.5 Identities = 11/44 (25%), Positives = 20/44 (45%), Gaps = 6/44 (13%) Query: 53 VRKRAARLARAPLAQKVISVEEKMVPFFRAGKNLKERLNSPDST 96 ++ A L+ L + + E+ F G N+ E L +P +T Sbjct: 188 IKFSAETLSE--LIRTTLDAEK----VFTQGLNILEWLENPSNT 225 >3o04_A LMO2201 protein, beta-keto-acyl carrier protein synthase II; csgid, structural genomics; 1.85A {Listeria monocytogenes} Length = 413 Score = 28.2 bits (63), Expect = 0.52 Identities = 10/25 (40%), Positives = 16/25 (64%), Gaps = 2/25 (8%) Query: 28 MLLEEMTQALANGGRV--EIRGFGS 50 ++LEE A A G ++ EI G+G+ Sbjct: 238 VILEEYEHAKARGAKIYAEIVGYGA 262 >3mqd_A Beta-ketoacyl synthase; ssgcid, ALS collaborative crystallography, beta-ketoacyl SYN brucella melitensis, fragments of LIFE; HET: 3MQ; 1.25A {Brucella melitensis biovar abortus} PDB: 3lrf_A* Length = 428 Score = 27.4 bits (61), Expect = 0.79 Identities = 10/25 (40%), Positives = 18/25 (72%), Gaps = 2/25 (8%) Query: 28 MLLEEMTQALANGGRV--EIRGFGS 50 ++LE++ ALA G ++ EI G+G+ Sbjct: 257 LVLEDLETALARGAKIYGEIVGYGA 281 >2vba_A 3-oxoacyl-[acyl-carrier-protein] synthase 1; cytoplasm, antibiotic, transferase, amino-thiazole, acyltransferase, lipid synthesis; HET: P4T; 1.36A {Escherichia coli} SCOP: c.95.1.1 c.95.1.1 PDB: 1fj4_A* 1g5x_A 2aq7_A* 1fj8_A* 2aqb_A 2bui_A 2buh_A 2vb7_A* 2vb8_A 2vb9_A* 1h4f_A 1dd8_A 2cdh_A 2bz4_A 2byz_A 2bz3_A* 2byy_A* 1f91_A* 2cf2_A 2byw_A ... Length = 406 Score = 27.3 bits (60), Expect = 0.89 Identities = 10/25 (40%), Positives = 17/25 (68%), Gaps = 2/25 (8%) Query: 28 MLLEEMTQALANGGRV--EIRGFGS 50 +++EE+ ALA G + EI G+G+ Sbjct: 238 VVVEELEHALARGAHIYAEIVGYGA 262 >2ix4_A 3-oxoacyl-[acyl-carrier-protein] synthase; beta-ketoacyl-(acyl carrier protein) synthase, lipid metabolism, condensing enzyme; 1.95A {Arabidopsis thaliana} SCOP: c.95.1.1 c.95.1.1 PDB: 1w0i_A Length = 431 Score = 27.1 bits (59), Expect = 0.93 Identities = 8/25 (32%), Positives = 14/25 (56%), Gaps = 2/25 (8%) Query: 28 MLLEEMTQALANGGRV--EIRGFGS 50 ++LEE A G ++ E+ G+G Sbjct: 255 IVLEEYEHAKRRGAKIYAELCGYGM 279 >3kzu_A 3-oxoacyl-(acyl-carrier-protein) synthase II; brucellosis, niaid, seattle structural genomics center for infectious disease, ssgcid; 1.75A {Brucella melitensis} PDB: 3e60_A Length = 428 Score = 26.9 bits (59), Expect = 1.0 Identities = 10/25 (40%), Positives = 17/25 (68%), Gaps = 2/25 (8%) Query: 28 MLLEEMTQALANGGRV--EIRGFGS 50 ++LEE+ ALA G ++ E+ G+G Sbjct: 254 VVLEELEHALARGAKIYAEVIGYGM 278 >2izo_A FEN1, flap structure-specific endonuclease; hydrolase, DNA repair, DNA-binding, endonuclease, metal-binding, excision repair, DNA replication, PCNA; HET: DNA; 2.9A {Sulfolobus solfataricus} Length = 346 Score = 26.7 bits (58), Expect = 1.2 Identities = 15/72 (20%), Positives = 26/72 (36%), Gaps = 13/72 (18%) Query: 9 TIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARLARAPLAQK 68 ++ LN + E I+N+L+ E F V+ RL +A K Sbjct: 288 VKPEEALDLNEPNGEDIINILVYEH-------------NFSEERVKNGIERLTKAIKEAK 334 Query: 69 VISVEEKMVPFF 80 S + + +F Sbjct: 335 GASRQTGLDRWF 346 >3ho9_A 3-oxoacyl-[acyl-carrier-protein] synthase 2; FABF, platensimycin, platencin A1, KAS2, acyltransferase, fatty acid biosynthesis; HET: N3A; 1.90A {Escherichia coli} PDB: 3hnz_A* 3ho2_A* 3g11_A* 2gfx_A* 3g0y_A* 2gfv_A* 2gfw_A 2gfy_A* 1kas_A 1b3n_A Length = 427 Score = 26.4 bits (58), Expect = 1.5 Identities = 9/25 (36%), Positives = 14/25 (56%), Gaps = 2/25 (8%) Query: 28 MLLEEMTQALANGGRV--EIRGFGS 50 ++LEE A G ++ E+ GFG Sbjct: 253 LVLEEYEHAKKRGAKIYAELVGFGM 277 >2xbl_A Phosphoheptose isomerase; capsule; HET: M7P PGE PG4; 1.62A {Burkholderia pseudomallei} PDB: 2x3y_A Length = 198 Score = 26.2 bits (57), Expect = 1.7 Identities = 10/48 (20%), Positives = 20/48 (41%) Query: 2 IKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFG 49 I +S+ L + + V + + ++A GG+V + G G Sbjct: 10 ITNSIAEAQRVMAAMLADERLLATVRKVADACIASIAQGGKVLLAGNG 57 >3c7b_B Sulfite reductase, dissimilatory-type subunit beta; alpha/beta fold, 4Fe-4S, heme, iron, iron-sulfur, membrane, metal-binding; HET: SRM; 2.00A {Archaeoglobus fulgidus} SCOP: d.58.1.5 d.58.36.2 d.134.1.1 Length = 366 Score = 26.1 bits (57), Expect = 2.0 Identities = 13/98 (13%), Positives = 31/98 (31%), Gaps = 11/98 (11%) Query: 2 IKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARLA 61 +K + K + + + +G + + G S +R L+ Sbjct: 225 LKPDMKNKTIKVDVEKCMYCGNCYTMCPGMPLFDPENDGAAIMVGGKLSE--ARRMPELS 282 Query: 62 R---------APLAQKVISVEEKMVPFFRAGKNLKERL 90 + P ++ ++++ + A N ERL Sbjct: 283 KVVVPWVPNEPPRWPTLVKYVKQILEAWAANANKHERL 320 >1um0_A Chorismate synthase; beta-alpha-beta sandwich fold, lyase; HET: FMN; 1.95A {Helicobacter pylori} SCOP: d.258.1.1 PDB: 1umf_A Length = 365 Score = 25.7 bits (56), Expect = 2.4 Identities = 10/38 (26%), Positives = 17/38 (44%) Query: 40 GGRVEIRGFGSFSVRKRAARLARAPLAQKVISVEEKMV 77 G + RG G S R+ A R+A A+ ++ + Sbjct: 113 YGIRDFRGGGRSSARESAIRVAAGAFAKMLLREIGIVC 150 >1r18_A Protein-L-isoaspartate(D-aspartate)-O- methyltransferase; isomerization, protein repair, S- adenosyl homocysteine; HET: SAH; 2.20A {Drosophila melanogaster} SCOP: c.66.1.7 Length = 227 Score = 25.8 bits (56), Expect = 2.6 Identities = 14/67 (20%), Positives = 25/67 (37%), Gaps = 3/67 (4%) Query: 25 IVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARLARAPLAQ---KVISVEEKMVPFFR 81 + LE + L G R+ G GS + R +A +++ +E + R Sbjct: 70 MHAFALEYLRDHLKPGARILDVGSGSGYLTACFYRYIKAKGVDADTRIVGIEHQAELVRR 129 Query: 82 AGKNLKE 88 + NL Sbjct: 130 SKANLNT 136 >1n5u_A Serum albumin; plasma protein; HET: MYR HEM; 1.90A {Homo sapiens} SCOP: a.126.1.1 a.126.1.1 a.126.1.1 PDB: 1bj5_A* 1bm0_A 1e78_A 1ao6_A* 1e7b_A 1e7c_A* 1e7e_A* 1e7f_A* 1e7g_A* 1e7h_A* 1e7i_A* 1gni_A* 1gnj_A* 1h9z_A* 1ha2_A* 1hk1_A* 1hk4_A* 1e7a_A* 1o9x_A* 1uor_A ... Length = 585 Score = 25.3 bits (55), Expect = 3.5 Identities = 6/25 (24%), Positives = 15/25 (60%) Query: 3 KSSLIGTIAKKNPKLNYQDVEKIVN 27 K+ + ++++ PK + +V K+V Sbjct: 212 KAWAVARLSQRFPKAEFAEVSKLVT 236 >2i2w_A Phosphoheptose isomerase; lipopolysaccharide biosynthesis; 1.95A {Escherichia coli} PDB: 2i22_A 1x94_A Length = 212 Score = 25.2 bits (54), Expect = 4.0 Identities = 8/48 (16%), Positives = 17/48 (35%), Gaps = 2/48 (4%) Query: 1 MIKSSLIGTI-AKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRG 47 +I++ L N + ++ I + + GG+V G Sbjct: 25 LIRNELNEAAETLANFLKDDANIHAIQRAA-VLLADSFKAGGKVLSCG 71 >3cvj_A Putative phosphoheptose isomerase; NP_244191.1, structural genomics, joint center for structural genomics, JCSG; HET: MSE; 2.00A {Bacillus halodurans c-125} Length = 243 Score = 24.8 bits (53), Expect = 4.8 Identities = 7/47 (14%), Positives = 18/47 (38%), Gaps = 8/47 (17%) Query: 4 SSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGS 50 + ++ + + + + + +A+ NGGR + G G Sbjct: 14 NRILSEVQETQEQAIIKGAHLVS--------EAVMNGGRFYVFGSGH 52 >3n1h_A Stwhy2; single-stranded DNA binding protein, plant, potato, DNA binding protein; 2.20A {Solanum tuberosum} PDB: 3n1i_A* 3n1j_A* 3n1k_A* 3n1l_A* Length = 178 Score = 24.4 bits (52), Expect = 5.9 Identities = 14/52 (26%), Positives = 22/52 (42%) Query: 37 LANGGRVEIRGFGSFSVRKRAARLARAPLAQKVISVEEKMVPFFRAGKNLKE 88 +A+ G+ E R F +SV K A L+ P ++ V R G + Sbjct: 1 MADAGKREGRVFAPYSVFKGKAALSAEPRLPTFNRLDSGGVKLNRRGVIMLT 52 >3gtx_A Organophosphorus hydrolase; mutant, amidohydrolase, alpha-beta barrel; HET: KCX; 1.62A {Deinococcus radiodurans} PDB: 2zc1_A* 3gti_A* 3gu9_A* 3gtf_A* 3gth_A* 3gu2_A* 3gu1_A* 3fdk_A* 3htw_A* Length = 339 Score = 24.3 bits (52), Expect = 6.4 Identities = 9/55 (16%), Positives = 15/55 (27%), Gaps = 2/55 (3%) Query: 11 AKKNPKLNYQDVEKIVNMLLEEMTQALANGGR--VEIRGFGSFSVRKRAARLARA 63 + L D + E LA G + V+ G ++ A Sbjct: 47 YAGDVTLGPFDHAAALASCTETARALLARGIQTVVDATPNGCGRNPAFLREVSEA 101 >1q2l_A Protease III; hydrolase; 2.20A {Escherichia coli str} SCOP: d.185.1.1 d.185.1.1 d.185.1.1 d.185.1.1 Length = 939 Score = 24.2 bits (51), Expect = 6.5 Identities = 8/31 (25%), Positives = 13/31 (41%) Query: 13 KNPKLNYQDVEKIVNMLLEEMTQALANGGRV 43 P L+ + E+ N + E+T A G Sbjct: 127 AEPLLDKKYAERERNAVNAELTMARTRDGMR 157 >2vo4_A 2,4-D inducible glutathione S-transferase; herbicide, TAU class GST, S-(P-nitrobenzyl- glutathione); HET: GTB 4NM; 1.75A {Glycine max} PDB: 3fhs_A* Length = 219 Score = 24.4 bits (52), Expect = 6.6 Identities = 7/39 (17%), Positives = 16/39 (41%), Gaps = 3/39 (7%) Query: 53 VRKRAARLARAPLAQKVISVEEKMVPFFRAGKNLKERLN 91 A R + K + ++K+ F +L+++L Sbjct: 182 FIAWAKRCLQKESVAKSLPDQQKVYEFI---MDLRKKLG 217 >1u6g_C TIP120 protein, CAND1; cullin repeat, heat repeat, ring finger, ligase; 3.10A {Homo sapiens} SCOP: a.118.1.2 Length = 1230 Score = 24.3 bits (51), Expect = 6.8 Identities = 9/31 (29%), Positives = 17/31 (54%) Query: 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLE 31 M + L+ + K + KL+ K+V M+L+ Sbjct: 25 MATNDLMTELQKDSIKLDDDSERKVVKMILK 55 >2nn6_H Exosome complex exonuclease RRP4; 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 = 308 Score = 24.1 bits (52), Expect = 7.3 Identities = 12/87 (13%), Positives = 33/87 (37%), Gaps = 5/87 (5%) Query: 2 IKSSLIGTIAKKNPKLNYQDVEKIVN-----MLLEEMTQALANGGRVEIRGFGSFSVRKR 56 + +S+ G++ + N + + ++ +++ +T+ +VE + Sbjct: 67 LIASVAGSVERVNKLICVKALKTRYIGEVGDIVVGRITEVQQKRWKVETNSRLDSVLLLS 126 Query: 57 AARLARAPLAQKVISVEEKMVPFFRAG 83 + L L ++ E M F + G Sbjct: 127 SMNLPGGELRRRSAEDELAMRGFLQEG 153 >1xp2_A EAD500, PLY500, L-alanyl-D-glutamate peptidase; hydrolase; 1.80A {Bacteriophage A500} PDB: 2vo9_A Length = 179 Score = 24.3 bits (52), Expect = 7.8 Identities = 10/32 (31%), Positives = 15/32 (46%) Query: 10 IAKKNPKLNYQDVEKIVNMLLEEMTQALANGG 41 I K N KLN + KI + + + +A G Sbjct: 21 IEKANRKLNAGGMYKITSDKTRNVIKKMAKEG 52 >2nzl_A Hydroxyacid oxidase 1; HAOX1, glycolate oxidase, GOX, GOX1, structural genomics, structural genomics consortium, SGC, oxidoreductase; HET: FMN; 1.35A {Homo sapiens} PDB: 2rdu_A* 2rdt_A* 2rdw_A* Length = 392 Score = 24.1 bits (51), Expect = 8.3 Identities = 10/41 (24%), Positives = 20/41 (48%) Query: 22 VEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARLAR 62 V+ ++ +L EE A+A G ++ VRK +++ Sbjct: 351 VQDVLEILKEEFRLAMALSGCQNVKVIDKTLVRKNPLAVSK 391 >2c5q_A RRAA-like protein YER010C; structural genomics,unknown function, structural genomics, unknown function, pseudo-knot; HET: CME; 1.70A {Saccharomyces cerevisiae} Length = 240 Score = 24.0 bits (51), Expect = 8.7 Identities = 5/35 (14%), Positives = 11/35 (31%) Query: 54 RKRAARLARAPLAQKVISVEEKMVPFFRAGKNLKE 88 + +K I V+ + + G K+ Sbjct: 187 VQETDISKLVTYIEKSIEVDLLVSEDIKNGIPAKQ 221 >3cww_A Insulysin, insulin-degrading enzyme, insulinase; A-beta degrading enzyme, criptidase, kinins, hydrolase; 1.96A {Homo sapiens} PDB: 2wby_A 2wc0_A 3e4z_A 2wk3_A 3e4a_A* 2g47_A 2g48_A 2g49_A 2g54_A 2g56_A 2jbu_A 3e50_A 2jg4_A 3hgz_A Length = 990 Score = 23.8 bits (50), Expect = 9.0 Identities = 5/31 (16%), Positives = 12/31 (38%) Query: 13 KNPKLNYQDVEKIVNMLLEEMTQALANGGRV 43 +P + ++ VN + E + + N Sbjct: 141 LSPLFDESAKDREVNAVDSEHEKNVMNDAWR 171 >1qxo_A Chorismate synthase; beta-alpha-beta, flavoprotein, shikimate, anti-infective, lyase; HET: FMN EPS; 2.00A {Streptococcus pneumoniae} SCOP: d.258.1.1 Length = 388 Score = 23.7 bits (51), Expect = 9.4 Identities = 5/32 (15%), Positives = 13/32 (40%) Query: 40 GGRVEIRGFGSFSVRKRAARLARAPLAQKVIS 71 S R+ R+A +A+++++ Sbjct: 120 RFDDLRNSLERSSARETTMRVAVGAVAKRLLA 151 >1p4c_A L(+)-mandelate dehydrogenase; TIM barrel, hydroxy acid oxidizing enzyme, oxidoreductase; HET: FMN MES; 1.35A {Pseudomonas putida} SCOP: c.1.4.1 PDB: 1huv_A* 1p5b_A* 3giy_A* 2a7p_A* 2a85_A* 2a7n_A* Length = 380 Score = 23.7 bits (50), Expect = 9.7 Identities = 6/37 (16%), Positives = 17/37 (45%) Query: 22 VEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAA 58 V++++ +L ++ + LA G +I ++ Sbjct: 322 VDEVLTLLKADIDRTLAQIGCPDITSLSPDYLQNEGV 358 >3iis_M PCP, peridinin-chlorophyll A-binding protein 1, chloroplastic; alpha helical, light harvesting protein, photosynthesis, carotenoids; HET: CLA PID J7Z; 1.40A {Amphidinium carterae} PDB: 3iiu_M* Length = 151 Score = 23.7 bits (51), Expect = 9.8 Identities = 16/80 (20%), Positives = 26/80 (32%), Gaps = 5/80 (6%) Query: 3 KSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARLA- 61 + K P + ++K++ M + L + GS S A Sbjct: 26 NGIFLQAPGKLQPLEALKAIDKMIVMGAAADPKLLKAAAEAHHKAIGSVSGPNGVTSRAD 85 Query: 62 ----RAPLAQKVISVEEKMV 77 A L + + SV E MV Sbjct: 86 WDSVNAALGRVIASVPENMV 105 Database: pdb70 Posted date: Jan 26, 2011 11:21 AM Number of letters in database: 5,693,230 Number of sequences in database: 24,244 Lambda K H 0.315 0.130 0.344 Gapped Lambda K H 0.267 0.0675 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 815,654 Number of extensions: 35744 Number of successful extensions: 193 Number of sequences better than 10.0: 1 Number of HSP's gapped: 184 Number of HSP's successfully gapped: 45 Length of query: 100 Length of database: 5,693,230 Length adjustment: 66 Effective length of query: 34 Effective length of database: 4,093,126 Effective search space: 139166284 Effective search space used: 139166284 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.6 bits) S2: 50 (23.1 bits)