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)