RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9606
(356 letters)
>3dfx_A Trans-acting T-cell-specific transcription factor GATA-3;
activator, DNA-binding, metal-binding, nucleus; HET:
DNA; 2.70A {Mus musculus} PDB: 3dfv_D* 2gat_A* 3gat_A*
1gat_A* 1gau_A*
Length = 63
Score = 84.3 bits (208), Expect = 6e-21
Identities = 29/61 (47%), Positives = 42/61 (68%)
Query: 69 PKRADLTCTNCNTKVTTIWRRYPSGEMVCNACGLYYRLHCRPRPVSMRRDNIHPRKRRPK 128
+RA +C NC T TT+WRR +G+ VCNACGLYY+LH RP++M+++ I R R+
Sbjct: 3 ARRAGTSCANCQTTTTTLWRRNANGDPVCNACGLYYKLHNINRPLTMKKEGIQTRNRKMS 62
Query: 129 N 129
+
Sbjct: 63 S 63
>4gat_A Nitrogen regulatory protein AREA; DNA binding protein,
transcription factor, zinc binding domain, complex
(transcription regulation/DNA); HET: DNA; NMR
{Emericella nidulans} SCOP: g.39.1.1 PDB: 5gat_A*
6gat_A* 7gat_A*
Length = 66
Score = 82.8 bits (204), Expect = 2e-20
Identities = 28/61 (45%), Positives = 39/61 (63%)
Query: 70 KRADLTCTNCNTKVTTIWRRYPSGEMVCNACGLYYRLHCRPRPVSMRRDNIHPRKRRPKN 129
+ TCTNC T+ T +WRR P G+ +CNACGL+ +LH RP+S++ D I R R N
Sbjct: 6 QNGPTTCTNCFTQTTPLWRRNPEGQPLCNACGLFLKLHGVVRPLSLKTDVIKKRNRNSAN 65
Query: 130 A 130
+
Sbjct: 66 S 66
>2kae_A GATA-type transcription factor; zinc finger, GATA-type, DNA; NMR
{Caenorhabditis elegans}
Length = 71
Score = 74.5 bits (183), Expect = 2e-17
Identities = 17/62 (27%), Positives = 28/62 (45%), Gaps = 1/62 (1%)
Query: 70 KRADLTCTNCNTKVTTIWRRYPSGE-MVCNACGLYYRLHCRPRPVSMRRDNIHPRKRRPK 128
+ C+NC+ T WR S E + CNAC +Y R + + RPV+ + + +
Sbjct: 5 NKKSFQCSNCSVTETIRWRNIRSKEGIQCNACFIYQRKYNKTRPVTAVNKYQKRKLKVQE 64
Query: 129 NA 130
Sbjct: 65 TN 66
>2vut_I AREA, nitrogen regulatory protein AREA; transcription regulation,
protein-protein interactions, metal-binding, nitrate
assimilation; HET: NAD; 2.3A {Emericella nidulans} SCOP:
g.39.1.1 PDB: 2vus_I* 2vuu_I*
Length = 43
Score = 72.5 bits (178), Expect = 8e-17
Identities = 23/42 (54%), Positives = 31/42 (73%)
Query: 74 LTCTNCNTKVTTIWRRYPSGEMVCNACGLYYRLHCRPRPVSM 115
TCTNC T+ T +WRR P G+ +CNACGL+ +LH RP+S+
Sbjct: 2 TTCTNCFTQTTPLWRRNPEGQPLCNACGLFLKLHGVVRPLSL 43
>1gnf_A Transcription factor GATA-1; zinc finger, transcription regulation;
NMR {Mus musculus} SCOP: g.39.1.1 PDB: 1y0j_A 2l6y_A
2l6z_A
Length = 46
Score = 71.7 bits (176), Expect = 1e-16
Identities = 17/39 (43%), Positives = 26/39 (66%)
Query: 75 TCTNCNTKVTTIWRRYPSGEMVCNACGLYYRLHCRPRPV 113
C NC T +WRR +G +CNACGLY++++ + RP+
Sbjct: 6 ECVNCGATATPLWRRDRTGHYLCNACGLYHKMNGQNRPL 44
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 53.9 bits (129), Expect = 8e-09
Identities = 14/47 (29%), Positives = 19/47 (40%), Gaps = 1/47 (2%)
Query: 57 RQDRQSNEQQIIPK-RADLTCTNCNTKVTTIWRRYPSGEMVCNACGL 102
R+ + P LTC C I R+ G++VC CGL
Sbjct: 4 RESIDKRAGRRGPNLNIVLTCPECKVYPPKIVERFSEGDVVCALCGL 50
>3k7a_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
DNA-binding, DNA- directed RNA polymerase, isopeptide
bond, magnesium; 3.80A {Saccharomyces cerevisiae}
Length = 345
Score = 37.2 bits (85), Expect = 0.006
Identities = 12/29 (41%), Positives = 15/29 (51%)
Query: 74 LTCTNCNTKVTTIWRRYPSGEMVCNACGL 102
LTC C I R+ G++VC CGL
Sbjct: 22 LTCPECKVYPPKIVERFSEGDVVCALCGL 50
>3dzy_A Retinoic acid receptor RXR-alpha; DNA-binding, HOST-virus
interaction, metal-binding, nucleus, receptor,
transcription, transcription regulation, zinc-FIN
activator; HET: DNA REA BRL; 3.10A {Homo sapiens} PDB:
3dzu_A* 3e00_A*
Length = 467
Score = 37.0 bits (85), Expect = 0.009
Identities = 29/143 (20%), Positives = 50/143 (34%), Gaps = 9/143 (6%)
Query: 193 VEHSHHHSHHHHDSGDNKSLSSGDESSSISLHSFISASLHHAPFNVGAPGGNSPPSHYAL 252
+ H HHH D + ++S +S + ++A H PG SP +
Sbjct: 1 MAHHHHHHVDDDDKMFSTQVNSS--LTSPTGRGSMAAPSLHPSL---GPGIGSPGQLH-- 53
Query: 253 NLSPLCEDNLPLNLAAGPPAEHSHHHSHHHHDSGDNKSLSSGDESSSISLHSFISASLHH 312
SP+ + P+N P + S H +L S +S +S
Sbjct: 54 --SPISTLSSPINGMGPPFSVISSPMGPHSMSVPTTPTLGFSTGSPQLSSPMNPVSSSED 111
Query: 313 APFNVGAPGGNSPPSHYALNLSP 335
+G G P+H + N++
Sbjct: 112 IKPPLGLNGVLKVPAHPSGNMAS 134
>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 = 37.1 bits (85), Expect = 0.009
Identities = 20/129 (15%), Positives = 33/129 (25%), Gaps = 37/129 (28%)
Query: 209 NKSLSSGD-ESSSISLHSFISASLHHAPFNVGAPGGNSPPSH------YAL-------NL 254
SL + S+IS+ S N H Y + +L
Sbjct: 413 KYSLVEKQPKESTISIPSIYLELKVKLE--------NEYALHRSIVDHYNIPKTFDSDDL 464
Query: 255 SPLCEDNLPLNLAAGPPAEHSHHHSHHHHDSGDNKSLSSGDESSSISLH-SFISASLHHA 313
P D + + H HH + ++ + L F+ + H
Sbjct: 465 IPPYLDQ------------YFYSHIGHHLKNIEHPERM--TLFRMVFLDFRFLEQKIRHD 510
Query: 314 PFNVGAPGG 322
A G
Sbjct: 511 STAWNASGS 519
Score = 34.8 bits (79), Expect = 0.053
Identities = 44/288 (15%), Positives = 84/288 (29%), Gaps = 81/288 (28%)
Query: 15 SYRNSLNRQEDNQHSSSNQLSETQLQQHHQAVLEDLRRDD-RHRQDRQSNEQQIIPKRAD 73
S R+ L ++ +H + ++L+ ++ L L + R DR S + P A
Sbjct: 336 SIRDGLATWDNWKHVNCDKLTTII-----ESSLNVLEPAEYRKMFDRLS----VFPPSAH 386
Query: 74 LTCTNCNTKV-TTIWRRYPSG--EMVCNACGLYYRLHCRPRPVSMRRDNIHPRKRRPKNA 130
+ T + + IW +V N Y + +P+ ++ +I+ +
Sbjct: 387 IP-----TILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLEN 441
Query: 131 KRELSGGESPGYAFGGATRRAKWCATRAASTIASTVDRVPCPCDATTFTRANDARRTPNV 190
+ L S VD P T +D P +
Sbjct: 442 EYALH---------------------------RSIVDHYNIPK-----TFDSDDLIPPYL 469
Query: 191 GNVEHSHHHSHHHHDSGDNKSLSSGDESSSISLH-SFISASLHHAPFNVGAPGG------ 243
+ + H HH + ++ + L F+ + H A G
Sbjct: 470 DQ--YFYSHIGHHLKNIEHPERM--TLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQ 525
Query: 244 -----------NSPPSHYALNLSPLCEDNLPLNLAAGPPAEHSHHHSH 280
N P Y ++ + D LP E+ +
Sbjct: 526 QLKFYKPYICDNDP--KYERLVNAI-LDFLP------KIEENLICSKY 564
Score = 27.9 bits (61), Expect = 6.4
Identities = 7/9 (77%), Positives = 7/9 (77%), Gaps = 1/9 (11%)
Query: 197 HHHSHHHHD 205
HHH HHH D
Sbjct: 1 HHH-HHHMD 8
Score = 27.9 bits (61), Expect = 6.4
Identities = 7/9 (77%), Positives = 7/9 (77%), Gaps = 1/9 (11%)
Query: 276 HHHSHHHHD 284
HHH HHH D
Sbjct: 1 HHH-HHHMD 8
>3pnr_B Pbicp-C; immunoglobulin fold, hydrolase-hydrolase inhibitor
complex; 2.60A {Plasmodium berghei}
Length = 187
Score = 32.9 bits (74), Expect = 0.088
Identities = 15/29 (51%), Positives = 16/29 (55%)
Query: 195 HSHHHSHHHHDSGDNKSLSSGDESSSISL 223
H HHH HHHH SG + GDE SL
Sbjct: 3 HHHHHHHHHHSSGHIEGRHMGDEKCGKSL 31
Score = 32.9 bits (74), Expect = 0.088
Identities = 15/29 (51%), Positives = 16/29 (55%)
Query: 274 HSHHHSHHHHDSGDNKSLSSGDESSSISL 302
H HHH HHHH SG + GDE SL
Sbjct: 3 HHHHHHHHHHSSGHIEGRHMGDEKCGKSL 31
>3d31_C Sulfate/molybdate ABC transporter, permease protein; ATP-binding,
nucleotide-binding, membrane, transmembrane, transport
protein; 3.00A {Methanosarcina acetivorans} SCOP:
f.58.1.1
Length = 295
Score = 33.2 bits (76), Expect = 0.097
Identities = 11/21 (52%), Positives = 12/21 (57%)
Query: 195 HSHHHSHHHHDSGDNKSLSSG 215
H HHH HHHH SG+N
Sbjct: 3 HHHHHHHHHHSSGENLYFQGH 23
Score = 33.2 bits (76), Expect = 0.097
Identities = 11/21 (52%), Positives = 12/21 (57%)
Query: 274 HSHHHSHHHHDSGDNKSLSSG 294
H HHH HHHH SG+N
Sbjct: 3 HHHHHHHHHHSSGENLYFQGH 23
>1dl6_A Transcription factor II B (TFIIB); zinc ribbon, gene regulation;
NMR {Homo sapiens} SCOP: g.41.3.1 PDB: 1rly_A 1ro4_A
Length = 58
Score = 29.5 bits (66), Expect = 0.20
Identities = 10/29 (34%), Positives = 15/29 (51%), Gaps = 2/29 (6%)
Query: 74 LTCTNCNTKVTTIWRRYPSGEMVCNACGL 102
+TC N + Y +G+M+C CGL
Sbjct: 12 VTCPNHPD--AILVEDYRAGDMICPECGL 38
>2es4_D Lipase chaperone; protein-protein complex, steric chaperone,
triacylglycerol hydrolase, all alpha helix protein, A/B
hydrolase fold; 1.85A {Burkholderia glumae} SCOP:
a.137.15.1
Length = 332
Score = 32.1 bits (72), Expect = 0.25
Identities = 15/61 (24%), Positives = 19/61 (31%)
Query: 195 HSHHHSHHHHDSGDNKSLSSGDESSSISLHSFISASLHHAPFNVGAPGGNSPPSHYALNL 254
H HHH HHHH SG + S + P + P AL
Sbjct: 2 HHHHHHHHHHSSGHIEGRHMPAAPSPAPAGAVAGGPAAGVPAAASGAAEAAMPLPAALPG 61
Query: 255 S 255
+
Sbjct: 62 A 62
Score = 32.1 bits (72), Expect = 0.25
Identities = 15/61 (24%), Positives = 19/61 (31%)
Query: 274 HSHHHSHHHHDSGDNKSLSSGDESSSISLHSFISASLHHAPFNVGAPGGNSPPSHYALNL 333
H HHH HHHH SG + S + P + P AL
Sbjct: 2 HHHHHHHHHHSSGHIEGRHMPAAPSPAPAGAVAGGPAAGVPAAASGAAEAAMPLPAALPG 61
Query: 334 S 334
+
Sbjct: 62 A 62
>2c07_A 3-oxoacyl-(acyl-carrier protein) reductase; oxidoreductase, FABG,
short-chain alcohol reductase, fatty acid biosynthesis,
apicoplast; 1.5A {Plasmodium falciparum} SCOP: c.2.1.2
Length = 285
Score = 31.8 bits (73), Expect = 0.29
Identities = 10/17 (58%), Positives = 11/17 (64%)
Query: 195 HSHHHSHHHHDSGDNKS 211
H HHH HHHH SG +
Sbjct: 3 HHHHHHHHHHSSGHIEG 19
Score = 31.8 bits (73), Expect = 0.29
Identities = 10/17 (58%), Positives = 11/17 (64%)
Query: 274 HSHHHSHHHHDSGDNKS 290
H HHH HHHH SG +
Sbjct: 3 HHHHHHHHHHSSGHIEG 19
>3bws_A Protein LP49; two-domain, immunoglobulin-like, 7-bladed beta
propeller, unknown function; 1.99A {Leptospira
interrogans}
Length = 433
Score = 31.4 bits (71), Expect = 0.44
Identities = 19/101 (18%), Positives = 35/101 (34%), Gaps = 9/101 (8%)
Query: 198 HHSHHHHDSGDNKSLSSGDESSSISLHSFISASLHHAPFNVGAPGGNSPPSHY------- 250
HH HHH +S + SL S + + + S+H V G P
Sbjct: 2 HHHHHHLESSGDFSLLSSPINREKNGTEIVKFSIHPYKGTVIRLGEEILPFKVLEMDKNI 61
Query: 251 -ALNLS-PLCEDNLPLNLAAGPPAEHSHHHSHHHHDSGDNK 289
+ ++ P+ +D + L P + + + + K
Sbjct: 62 ALVEMAIPVYKDEKEIELKLSSPGFQNSSYRIRKPEELNEK 102
Score = 30.6 bits (69), Expect = 0.87
Identities = 14/51 (27%), Positives = 20/51 (39%)
Query: 277 HHSHHHHDSGDNKSLSSGDESSSISLHSFISASLHHAPFNVGAPGGNSPPS 327
HH HHH +S + SL S + + + S+H V G P
Sbjct: 2 HHHHHHLESSGDFSLLSSPINREKNGTEIVKFSIHPYKGTVIRLGEEILPF 52
>3mpx_A FYVE, rhogef and PH domain-containing protein 5; structural
genomics consortium, DH domain, SGC, L binding protein;
2.80A {Homo sapiens}
Length = 434
Score = 31.5 bits (71), Expect = 0.44
Identities = 16/73 (21%), Positives = 25/73 (34%), Gaps = 3/73 (4%)
Query: 31 SNQLSETQLQQHHQAVLEDLRRDDRHRQDRQSNEQQIIPKRADLTCTNCNTKVTTIWRRY 90
S L E Q A + +R ++P + C NC + RR+
Sbjct: 333 SRALPEDYKAQALAAFHHSVEIRERLGVSLGERPPTLVPVTHVMMCMNCGCDFSLTLRRH 392
Query: 91 P---SGEMVCNAC 100
G++VC C
Sbjct: 393 HCHACGKIVCRNC 405
>1pft_A TFIIB, PFTFIIBN; N-terminal domain, transcription initiation
factor; NMR {Pyrococcus furiosus} SCOP: g.41.3.1
Length = 50
Score = 28.2 bits (63), Expect = 0.48
Identities = 8/30 (26%), Positives = 11/30 (36%), Gaps = 2/30 (6%)
Query: 73 DLTCTNCNTKVTTIWRRYPSGEMVCNACGL 102
C C + + GE+VC CG
Sbjct: 5 QKVCPACES--AELIYDPERGEIVCAKCGY 32
>2yjp_A Putative ABC transporter, periplasmic binding Pro amino acid;
transport protein, solute-binding protein; 2.26A
{Neisseria gonorrhoeae}
Length = 291
Score = 30.8 bits (70), Expect = 0.60
Identities = 12/22 (54%), Positives = 14/22 (63%), Gaps = 4/22 (18%)
Query: 195 HSHHHSHHHHDSG----DNKSL 212
H HHH HHHH SG D+K +
Sbjct: 3 HHHHHHHHHHSSGHIDDDDKHM 24
Score = 30.8 bits (70), Expect = 0.60
Identities = 12/22 (54%), Positives = 14/22 (63%), Gaps = 4/22 (18%)
Query: 274 HSHHHSHHHHDSG----DNKSL 291
H HHH HHHH SG D+K +
Sbjct: 3 HHHHHHHHHHSSGHIDDDDKHM 24
>1fft_C Ubiquinol oxidase; electron transport, cytochrome oxidase, membrane
protein, oxidoreductase; HET: HEM HEO; 3.50A
{Escherichia coli} SCOP: f.25.1.1
Length = 204
Score = 30.3 bits (69), Expect = 0.62
Identities = 8/26 (30%), Positives = 11/26 (42%)
Query: 187 TPNVGNVEHSHHHSHHHHDSGDNKSL 212
+ +H H H HHD+G K
Sbjct: 2 ATDTLTHATAHAHEHGHHDAGGTKIF 27
Score = 28.4 bits (64), Expect = 2.9
Identities = 8/20 (40%), Positives = 10/20 (50%)
Query: 272 AEHSHHHSHHHHDSGDNKSL 291
+H H H HHD+G K
Sbjct: 8 HATAHAHEHGHHDAGGTKIF 27
>3icg_A Endoglucanase D; cellulase, xylanase, carbohydrate binding DOM
glucanase, carbohydrate metabolism, cellulose
degradation, glycosidase; HET: BTB; 2.10A {Clostridium
cellulovorans}
Length = 515
Score = 31.0 bits (69), Expect = 0.68
Identities = 15/54 (27%), Positives = 22/54 (40%), Gaps = 8/54 (14%)
Query: 236 FNVGAPGGNSPPSHYALNLSPLC-------EDNLPLNLAAGPPAEHSHHHSHHH 282
FN+ G S P+ + +N + C E N G + + HH HHH
Sbjct: 463 FNINYSGVLSKPTGFTVNGTE-CTVKKGELEGKPIPNPLLGLDSTRTGHHHHHH 515
>3odm_A Pepcase, PEPC, phosphoenolpyruvate carboxylase; beta-barrel, lyase;
2.95A {Clostridium perfringens}
Length = 560
Score = 30.8 bits (69), Expect = 0.79
Identities = 10/13 (76%), Positives = 10/13 (76%)
Query: 195 HSHHHSHHHHDSG 207
H HHH HHHH SG
Sbjct: 3 HHHHHHHHHHSSG 15
Score = 30.8 bits (69), Expect = 0.79
Identities = 10/13 (76%), Positives = 10/13 (76%)
Query: 274 HSHHHSHHHHDSG 286
H HHH HHHH SG
Sbjct: 3 HHHHHHHHHHSSG 15
>3uau_A JLPA, surface-exposed lipoprotein; adhesin, bacterial cell surface,
cell adhesion; 2.70A {Campylobacter jejuni subsp}
Length = 379
Score = 29.8 bits (66), Expect = 1.3
Identities = 12/26 (46%), Positives = 14/26 (53%), Gaps = 4/26 (15%)
Query: 195 HSHHHSHHHHDSG----DNKSLSSGD 216
H HHH HHHH SG D+K +
Sbjct: 3 HHHHHHHHHHSSGHIDDDDKHMCGNS 28
Score = 29.8 bits (66), Expect = 1.3
Identities = 12/26 (46%), Positives = 14/26 (53%), Gaps = 4/26 (15%)
Query: 274 HSHHHSHHHHDSG----DNKSLSSGD 295
H HHH HHHH SG D+K +
Sbjct: 3 HHHHHHHHHHSSGHIDDDDKHMCGNS 28
>1svj_A Potassium-transporting ATPase B chain; alpha-beta sandwich,
hydrolase; NMR {Escherichia coli} SCOP: d.220.1.1 PDB:
1u7q_A 2a00_A* 2a29_A*
Length = 156
Score = 29.0 bits (65), Expect = 1.5
Identities = 10/13 (76%), Positives = 10/13 (76%)
Query: 195 HSHHHSHHHHDSG 207
H HHH HHHH SG
Sbjct: 3 HHHHHHHHHHSSG 15
Score = 29.0 bits (65), Expect = 1.5
Identities = 10/13 (76%), Positives = 10/13 (76%)
Query: 274 HSHHHSHHHHDSG 286
H HHH HHHH SG
Sbjct: 3 HHHHHHHHHHSSG 15
>2oay_A C1-inhibitor, plasma protease C1 inhibitor, C1 INH, C1INH; latent
serpin, RCL insertion, immune system,hydrolase inhibi;
HET: NAG; 2.35A {Homo sapiens}
Length = 390
Score = 29.5 bits (67), Expect = 1.8
Identities = 16/68 (23%), Positives = 20/68 (29%), Gaps = 10/68 (14%)
Query: 195 HSHHHSHHHHDSGDNKSLSSGDESSSISLHSFISA------SLHHAPFNVGAPGGN---S 245
+ HHH HH D S + A L+HA + N S
Sbjct: 1 YVHHHHHHTGSFCPGPVTLCSDLESHSTEAVLGDALVDFSLKLYHAFSAMKKVETNMAFS 60
Query: 246 PPS-HYAL 252
P S L
Sbjct: 61 PFSIASLL 68
Score = 29.5 bits (67), Expect = 1.8
Identities = 16/68 (23%), Positives = 20/68 (29%), Gaps = 10/68 (14%)
Query: 274 HSHHHSHHHHDSGDNKSLSSGDESSSISLHSFISA------SLHHAPFNVGAPGGN---S 324
+ HHH HH D S + A L+HA + N S
Sbjct: 1 YVHHHHHHTGSFCPGPVTLCSDLESHSTEAVLGDALVDFSLKLYHAFSAMKKVETNMAFS 60
Query: 325 PPS-HYAL 331
P S L
Sbjct: 61 PFSIASLL 68
>3rce_A Oligosaccharide transferase to N-glycosylate PROT;
oligosaccharyltransferase, membrane protein, helical
bundle, glycosylation, acceptor peptide, plasma
membrane; HET: PPN; 3.40A {Campylobacter lari}
Length = 724
Score = 29.2 bits (64), Expect = 2.2
Identities = 8/10 (80%), Positives = 8/10 (80%)
Query: 195 HSHHHSHHHH 204
H HHH HHHH
Sbjct: 715 HHHHHHHHHH 724
Score = 29.2 bits (64), Expect = 2.2
Identities = 8/10 (80%), Positives = 8/10 (80%)
Query: 274 HSHHHSHHHH 283
H HHH HHHH
Sbjct: 715 HHHHHHHHHH 724
>3b7s_A Leukotriene A-4 hydrolase; transition state, analogue peptide,
hydrolysis, hydrolase, leukotriene biosynthesis,
metal-binding, metalloprotease; 1.47A {Homo sapiens}
SCOP: a.118.1.7 b.98.1.1 d.92.1.13 PDB: 3b7t_A 3b7r_L*
2r59_A* 3b7u_X* 3fun_A* 1hs6_A* 2vj8_A* 3fh7_A* 3fh8_A*
3fhe_A* 3fts_A* 3ftu_A* 3ftv_A* 3ftw_A* 3ftx_A* 3fty_A*
3ftz_A* 3fu0_A* 3fu3_A* 3fu5_A* ...
Length = 616
Score = 29.4 bits (66), Expect = 2.4
Identities = 14/59 (23%), Positives = 17/59 (28%), Gaps = 26/59 (44%)
Query: 198 HHSHHHHDSGDNKSLSSGDESSSISLHSFISASLHHAPFNVGAPGGNSPPSHYALNLSP 256
HH HHH + D SL+S P +V H L S
Sbjct: 1 HHHHHHPEIVDTCSLAS--------------------PASVC------RTKHLHLRCSV 33
Score = 29.4 bits (66), Expect = 2.4
Identities = 14/59 (23%), Positives = 17/59 (28%), Gaps = 26/59 (44%)
Query: 277 HHSHHHHDSGDNKSLSSGDESSSISLHSFISASLHHAPFNVGAPGGNSPPSHYALNLSP 335
HH HHH + D SL+S P +V H L S
Sbjct: 1 HHHHHHPEIVDTCSLAS--------------------PASVC------RTKHLHLRCSV 33
>4fl4_A Glycoside hydrolase family 9; structural genomics,
montreal-kingston bacterial structural initiative, BSGI,
dockerin; 2.80A {Clostridium thermocellum} PDB: 3p0d_A
Length = 88
Score = 27.3 bits (61), Expect = 2.6
Identities = 12/22 (54%), Positives = 13/22 (59%)
Query: 195 HSHHHSHHHHDSGDNKSLSSGD 216
H HHH HHHH SG + GD
Sbjct: 3 HHHHHHHHHHSSGHIEGRHMGD 24
Score = 27.3 bits (61), Expect = 2.6
Identities = 12/22 (54%), Positives = 13/22 (59%)
Query: 274 HSHHHSHHHHDSGDNKSLSSGD 295
H HHH HHHH SG + GD
Sbjct: 3 HHHHHHHHHHSSGHIEGRHMGD 24
>3tq8_A Dihydrofolate reductase; oxidoreductase-oxidoreductase inhib
complex; HET: NDP TOP; 1.90A {Coxiella burnetii} PDB:
3tq9_A* 3tqa_A* 3tqb_A*
Length = 178
Score = 28.3 bits (64), Expect = 2.7
Identities = 11/20 (55%), Positives = 12/20 (60%)
Query: 185 RRTPNVGNVEHSHHHSHHHH 204
RR N+ H HHH HHHH
Sbjct: 159 RRLENLYFQGHHHHHHHHHH 178
>3ne5_B Cation efflux system protein CUSB; transmembrane helix, metal
transport; 2.90A {Escherichia coli} PDB: 3ooc_A 3opo_A
3ow7_A 3h9i_A 3h94_A 3h9t_B
Length = 413
Score = 28.6 bits (64), Expect = 3.0
Identities = 8/15 (53%), Positives = 9/15 (60%)
Query: 268 AGPPAEHSHHHSHHH 282
A H+HHH HHH
Sbjct: 399 RSESATHAHHHHHHH 413
>3tla_A MCCF; serine protease, hydrolase; 1.20A {Escherichia coli} PDB:
3tle_A* 3tlg_A 3tlb_A* 3tlc_A* 3tlz_A* 3tly_A
Length = 371
Score = 28.7 bits (64), Expect = 3.0
Identities = 10/16 (62%), Positives = 10/16 (62%)
Query: 271 PAEHSHHHSHHHHDSG 286
H HHH HHHH SG
Sbjct: 2 GHHHHHHHHHHHHSSG 17
>3u61_A DNA polymerase accessory protein 62; AAA+, ATP hydrolase, clamp
loader, sliding clamp, primer-TEM DNA, DNA binding
protein-DNA complex; HET: DNA ADP 08T; 3.20A
{Enterobacteria phage T4} PDB: 3u5z_A* 3u60_A*
Length = 199
Score = 28.3 bits (63), Expect = 3.2
Identities = 9/12 (75%), Positives = 10/12 (83%)
Query: 193 VEHSHHHSHHHH 204
+EH HHH HHHH
Sbjct: 188 LEHHHHHHHHHH 199
Score = 28.0 bits (62), Expect = 4.0
Identities = 9/11 (81%), Positives = 9/11 (81%)
Query: 273 EHSHHHSHHHH 283
EH HHH HHHH
Sbjct: 189 EHHHHHHHHHH 199
>3oc3_A Helicase MOT1, MOT1; regulation of transcription, hydrolase-transc
complex; HET: MES; 3.10A {Encephalitozoon cuniculi}
Length = 800
Score = 28.7 bits (63), Expect = 3.7
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 195 HSHHHSHHHHDSGDNKSLSS 214
H HHH HHHH ++++S
Sbjct: 3 HHHHHHHHHHAGAGARNMAS 22
Score = 28.7 bits (63), Expect = 3.7
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 274 HSHHHSHHHHDSGDNKSLSS 293
H HHH HHHH ++++S
Sbjct: 3 HHHHHHHHHHAGAGARNMAS 22
>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine
kinase domain, signaling protein, transferase, inner
membrane, membrane; 2.50A {Escherichia coli}
Length = 299
Score = 28.5 bits (64), Expect = 3.7
Identities = 10/13 (76%), Positives = 10/13 (76%)
Query: 195 HSHHHSHHHHDSG 207
H HHH HHHH SG
Sbjct: 3 HHHHHHHHHHSSG 15
Score = 28.5 bits (64), Expect = 3.7
Identities = 10/13 (76%), Positives = 10/13 (76%)
Query: 274 HSHHHSHHHHDSG 286
H HHH HHHH SG
Sbjct: 3 HHHHHHHHHHSSG 15
>1joc_A EEA1, early endosomal autoantigen 1; FYVE domain, inositol
3-phosphate binding, membrane protein; HET: ITP; 2.20A
{Homo sapiens} SCOP: g.50.1.1 h.1.21.1 PDB: 1hyi_A*
1hyj_A
Length = 125
Score = 27.2 bits (60), Expect = 3.8
Identities = 17/99 (17%), Positives = 30/99 (30%), Gaps = 10/99 (10%)
Query: 12 STQSYRNSLNRQEDNQHSSSNQLSET--QLQQHHQAVLEDLRRDDRHRQDRQSNEQQIIP 69
+ Q R +L + +L +LQ+ ++ R Q Q Q +
Sbjct: 1 NNQDERRALLERCLKGEGEIEKLQTKVLELQRKLDNTTAAVQELGRENQSLQIKHTQALN 60
Query: 70 KR-----ADLTCTNCNTKVTTIWRR---YPSGEMVCNAC 100
++ C C + RR G + C C
Sbjct: 61 RKWAEDNEVQNCMACGKGFSVTVRRHHCRQCGNIFCAEC 99
>3esm_A Uncharacterized protein; structural genomics, unknown function,
PSI-2, protein structure initiative; 1.65A {Nocardia
farcinica}
Length = 152
Score = 27.7 bits (61), Expect = 4.3
Identities = 9/18 (50%), Positives = 9/18 (50%)
Query: 264 LNLAAGPPAEHSHHHSHH 281
L LA P HHH HH
Sbjct: 135 LTLATAPGDTEGHHHHHH 152
>2vhh_A CG3027-PA; hydrolase; 2.8A {Drosophila melanogaster} PDB: 2vhi_A
Length = 405
Score = 28.2 bits (63), Expect = 4.7
Identities = 9/17 (52%), Positives = 10/17 (58%)
Query: 270 PPAEHSHHHSHHHHDSG 286
P + HH HHHH SG
Sbjct: 389 PGDDDDKHHHHHHHHSG 405
Score = 27.5 bits (61), Expect = 7.5
Identities = 10/35 (28%), Positives = 15/35 (42%), Gaps = 6/35 (17%)
Query: 179 TRANDARRTPNV------GNVEHSHHHSHHHHDSG 207
+A++ P + + HH HHHH SG
Sbjct: 371 KKASEHGFKPQIIKETQFPGDDDDKHHHHHHHHSG 405
>3k1z_A Haloacid dehalogenase-like hydrolase domain-conta protein 3; HDHD3,
haloacid dehalogenase-like hydrolase domain containin
structural genomics; 1.55A {Homo sapiens}
Length = 263
Score = 27.8 bits (62), Expect = 4.8
Identities = 10/26 (38%), Positives = 13/26 (50%)
Query: 264 LNLAAGPPAEHSHHHSHHHHDSGDNK 289
L +A SHHH HH + D+K
Sbjct: 238 LEGSAENLYFQSHHHHHHDYKDDDDK 263
>2f8a_A Glutathione peroxidase 1; thioredoxin fold, structural genomics,
structural genomics consortium, SGC, oxidoreductase;
1.50A {Homo sapiens} SCOP: c.47.1.10 PDB: 1gp1_A 2he3_A
Length = 208
Score = 27.7 bits (62), Expect = 5.3
Identities = 10/28 (35%), Positives = 15/28 (53%)
Query: 199 HSHHHHDSGDNKSLSSGDESSSISLHSF 226
H HHHH SG + + S S+++F
Sbjct: 2 HHHHHHSSGVDLGTENLYFQSMQSVYAF 29
Score = 27.7 bits (62), Expect = 5.3
Identities = 10/28 (35%), Positives = 15/28 (53%)
Query: 278 HSHHHHDSGDNKSLSSGDESSSISLHSF 305
H HHHH SG + + S S+++F
Sbjct: 2 HHHHHHSSGVDLGTENLYFQSMQSVYAF 29
>1pq4_A Periplasmic binding protein component of AN ABC T uptake
transporter; ZNUA, loop, metal-binding, metal binding
protein; 1.90A {Synechocystis SP} SCOP: c.92.2.2 PDB:
2ov3_A 2ov1_A
Length = 291
Score = 27.8 bits (62), Expect = 6.1
Identities = 2/16 (12%), Positives = 4/16 (25%)
Query: 272 AEHSHHHSHHHHDSGD 287
+E + D
Sbjct: 116 SESEKEKAKGALMVAD 131
Score = 27.8 bits (62), Expect = 6.1
Identities = 2/15 (13%), Positives = 3/15 (20%)
Query: 194 EHSHHHSHHHHDSGD 208
E + D
Sbjct: 117 ESEKEKAKGALMVAD 131
>4fx5_A VON willebrand factor type A; structural genomics, PSI-biology,
midwest center for structu genomics, MCSG, blood
clotting; HET: MSE; 1.73A {Catenulispora acidiphila}
Length = 464
Score = 27.7 bits (61), Expect = 7.1
Identities = 15/78 (19%), Positives = 27/78 (34%), Gaps = 3/78 (3%)
Query: 198 HHSHHHHDSGDNKSLSSGDESSSISLHSFISASLHHAPFNVGAPGGNSPPSHYALNLSPL 257
HH HHH D + + +S+++S + + ++ F G +
Sbjct: 2 HHHHHHSSGVDLGTENLYFQSNAMSQYPDFAFEINQNEF---LAAGVREVHAVVTLTATA 58
Query: 258 CEDNLPLNLAAGPPAEHS 275
P + G PA S
Sbjct: 59 AAGGAPAAASYGAPASGS 76
>3q3q_A Alkaline phosphatase; hydrolase; 1.95A {Sphingomonas SP}
Length = 565
Score = 27.4 bits (59), Expect = 7.6
Identities = 22/133 (16%), Positives = 34/133 (25%), Gaps = 23/133 (17%)
Query: 174 DATTFTRANDARRTPNVGNVEHSHHHSHHHHDSGD--------NKSLSSGDESSSISLHS 225
P ++ S + SGD S+ S++ H
Sbjct: 433 TKAEIAATPSPSGPPESWSLIQEARASFYPSRSGDLLLLLKPRVMSIPEQAVMGSVATHG 492
Query: 226 FISASLHHAPFNVGAPG---GNSPPSHYALNLSPL------------CEDNLPLNLAAGP 270
+ P G P +++ P D L+L AG
Sbjct: 493 SPWDTDRRVPILFWRKGMQHFEQPLGVETVDILPSLAALIKLPVPKDQIDGRCLDLVAGK 552
Query: 271 PAEHSHHHSHHHH 283
+ H HHHH
Sbjct: 553 DDSCAGQHHHHHH 565
>1ttw_B YSCM2; chaperone, type III secretion; 2.38A {Yersinia pestis}
Length = 56
Score = 25.2 bits (54), Expect = 8.0
Identities = 12/28 (42%), Positives = 14/28 (50%)
Query: 176 TTFTRANDARRTPNVGNVEHSHHHSHHH 203
T R + A+ P N E S HH HHH
Sbjct: 29 TILNRQDVAKLLPRASNFELSQHHHHHH 56
>3b9f_I Protein C inhibitor; michaelis complex, acute phase, blood
coagulation, cleavage of basic residues, disease
mutation; HET: NAG FUC SGN IDS; 1.60A {Homo sapiens}
PDB: 2ol2_A*
Length = 395
Score = 27.2 bits (61), Expect = 8.4
Identities = 20/60 (33%), Positives = 25/60 (41%), Gaps = 8/60 (13%)
Query: 195 HSHHHSHHHHDSGDNKSLSSGDESSSI---SLHSFISASLHHAPFNVGAPGGN---SPPS 248
H HHH HHHH SG +++ S F + L+ A AP N SP S
Sbjct: 3 HHHHHHHHHHSSGHIDDDDKHMVGATVAPSSRRDF-TFDLYRA-LASAAPSQNIFFSPVS 60
Score = 27.2 bits (61), Expect = 8.4
Identities = 20/60 (33%), Positives = 25/60 (41%), Gaps = 8/60 (13%)
Query: 274 HSHHHSHHHHDSGDNKSLSSGDESSSI---SLHSFISASLHHAPFNVGAPGGN---SPPS 327
H HHH HHHH SG +++ S F + L+ A AP N SP S
Sbjct: 3 HHHHHHHHHHSSGHIDDDDKHMVGATVAPSSRRDF-TFDLYRA-LASAAPSQNIFFSPVS 60
>2g9z_A Thiamine pyrophosphokinase; thiamin-PNP, TPK, thiamin
pyrophosphokinase, structural GENO profun, bacterial
targets at IGS-CNRS, france, BIGS; HET: VNP; 1.96A
{Candida albicans} PDB: 2hh9_A*
Length = 348
Score = 27.2 bits (59), Expect = 8.7
Identities = 18/64 (28%), Positives = 26/64 (40%), Gaps = 6/64 (9%)
Query: 195 HSHHHSHHHHDSGDNKSLSS----GDESSSISLHSFISASLHH--APFNVGAPGGNSPPS 248
H HHH HHH ++ L +S IS S S+S ++ PF + +
Sbjct: 3 HHHHHHGHHHQLSEDSELIEQVIEQPDSLIISPPSDSSSSSYNHIQPFVYLESTATTQTN 62
Query: 249 HYAL 252
H L
Sbjct: 63 HNVL 66
Score = 27.2 bits (59), Expect = 8.7
Identities = 18/64 (28%), Positives = 26/64 (40%), Gaps = 6/64 (9%)
Query: 274 HSHHHSHHHHDSGDNKSLSS----GDESSSISLHSFISASLHH--APFNVGAPGGNSPPS 327
H HHH HHH ++ L +S IS S S+S ++ PF + +
Sbjct: 3 HHHHHHGHHHQLSEDSELIEQVIEQPDSLIISPPSDSSSSSYNHIQPFVYLESTATTQTN 62
Query: 328 HYAL 331
H L
Sbjct: 63 HNVL 66
>3c3r_A Programmed cell death 6-interacting protein; ALIX BRO1 CHMP4C
amphipathic-helix, apoptosis, HOST-virus interaction,
protein transport, transport; 2.02A {Homo sapiens} PDB:
2oew_A 3c3o_A 3c3q_A
Length = 380
Score = 27.1 bits (59), Expect = 9.1
Identities = 10/28 (35%), Positives = 13/28 (46%)
Query: 197 HHHSHHHHDSGDNKSLSSGDESSSISLH 224
HHH HHHH G ++ IS+
Sbjct: 2 HHHHHHHHHHSGQNLYFQGHMATFISVQ 29
Score = 27.1 bits (59), Expect = 9.1
Identities = 10/28 (35%), Positives = 13/28 (46%)
Query: 276 HHHSHHHHDSGDNKSLSSGDESSSISLH 303
HHH HHHH G ++ IS+
Sbjct: 2 HHHHHHHHHHSGQNLYFQGHMATFISVQ 29
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
0.314 0.128 0.395
Gapped
Lambda K H
0.267 0.0535 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,539,049
Number of extensions: 345926
Number of successful extensions: 3951
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3721
Number of HSP's successfully gapped: 139
Length of query: 356
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 261
Effective length of database: 4,049,298
Effective search space: 1056866778
Effective search space used: 1056866778
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 (22.0 bits)
S2: 58 (26.6 bits)