RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9641
(145 letters)
>2pgd_A 6-phosphogluconate dehydrogenase; oxidoreductase
(CHOH(D)-NADP+(A)); 2.00A {Ovis aries} SCOP: a.100.1.1
c.2.1.6 PDB: 1pgo_A* 1pgp_A* 1pgq_A* 1pgn_A 2jkv_A*
Length = 482
Score = 184 bits (469), Expect = 3e-57
Identities = 70/104 (67%), Positives = 81/104 (77%)
Query: 1 MSAVFEDWNKGELDSFLIEITKDILKFKDTDGAPLVEKIKDYAGQKGTGKWTAISALDYG 60
M+ FE+WNK ELDSFLIEIT ILKF+D DG L+ KI+D AGQKGTGKWTAISAL+YG
Sbjct: 215 MAKAFEEWNKTELDSFLIEITASILKFQDADGKHLLPKIRDSAGQKGTGKWTAISALEYG 274
Query: 61 VPVTLIGESVFSRCLSSLFDERQKASQVLQGPNPTYKGKDTTYF 104
VPVTLIGE+VF+RCLSSL DER +AS+ L+GP D F
Sbjct: 275 VPVTLIGEAVFARCLSSLKDERIQASKKLKGPQNIPFEGDKKSF 318
>2zyd_A 6-phosphogluconate dehydrogenase, decarboxylating; NADP, pentose
phosphate pathway, oxidoreductase, 6-phosphogl
dehydrogenase; HET: GLO; 1.50A {Escherichia coli} PDB:
2zya_A* 3fwn_A* 2zyg_A 2w8z_A* 2w90_A*
Length = 480
Score = 183 bits (468), Expect = 3e-57
Identities = 55/98 (56%), Positives = 68/98 (69%)
Query: 1 MSAVFEDWNKGELDSFLIEITKDILKFKDTDGAPLVEKIKDYAGQKGTGKWTAISALDYG 60
++ F +WN GEL S+LI+ITKDI KD DG LV+ I D A KGTGKWT+ SALD G
Sbjct: 227 LAQTFTEWNNGELSSYLIDITKDIFTKKDEDGNYLVDVILDEAANKGTGKWTSQSALDLG 286
Query: 61 VPVTLIGESVFSRCLSSLFDERQKASQVLQGPNPTYKG 98
P++LI ESVF+R +SSL D+R AS+VL GP G
Sbjct: 287 EPLSLITESVFARYISSLKDQRVAASKVLSGPQAQPAG 324
>2iz1_A 6-phosphogluconate dehydrogenase, decarboxylating; pentose shunt,
oxidoreductase, gluconate utilization; HET: ATR RES P33;
2.30A {Lactococcus lactis} PDB: 2iz0_A* 2iyp_A* 2iyo_A*
Length = 474
Score = 178 bits (455), Expect = 3e-55
Identities = 60/99 (60%), Positives = 77/99 (77%), Gaps = 1/99 (1%)
Query: 1 MSAVFEDWNKGELDSFLIEITKDILKFKDTDG-APLVEKIKDYAGQKGTGKWTAISALDY 59
+ A+FE+WN+GELDS+LIEITK++LK KD +G +V+KI D AG KGTGKWT+ SALD
Sbjct: 218 IQAIFEEWNEGELDSYLIEITKEVLKRKDDEGEGYIVDKILDKAGNKGTGKWTSESALDL 277
Query: 60 GVPVTLIGESVFSRCLSSLFDERQKASQVLQGPNPTYKG 98
GVP+ LI ESVF+R +S+ DER KAS+VL GP + G
Sbjct: 278 GVPLPLITESVFARYISTYKDERVKASKVLSGPALDFSG 316
>2p4q_A 6-phosphogluconate dehydrogenase, decarboxylating; rossmann fold,
oxidoreductase; HET: FLC; 2.37A {Saccharomyces
cerevisiae}
Length = 497
Score = 176 bits (449), Expect = 3e-54
Identities = 67/95 (70%), Positives = 78/95 (82%)
Query: 1 MSAVFEDWNKGELDSFLIEITKDILKFKDTDGAPLVEKIKDYAGQKGTGKWTAISALDYG 60
+S VF WN G LDSFL+EIT+DILKF D DG PLVEKI D AGQKGTGKWTAI+ALD G
Sbjct: 222 ISDVFAKWNNGVLDSFLVEITRDILKFDDVDGKPLVEKIMDTAGQKGTGKWTAINALDLG 281
Query: 61 VPVTLIGESVFSRCLSSLFDERQKASQVLQGPNPT 95
+PVTLIGE+VF+RCLS+L +ER +AS+VL GP
Sbjct: 282 MPVTLIGEAVFARCLSALKNERIRASKVLPGPEVP 316
>1pgj_A 6PGDH, 6-PGDH, 6-phosphogluconate dehydrogenase; oxidoreductase,
CHOH(D)-NADP+(B); 2.82A {Trypanosoma brucei} SCOP:
a.100.1.1 c.2.1.6
Length = 478
Score = 165 bits (419), Expect = 6e-50
Identities = 35/96 (36%), Positives = 53/96 (55%), Gaps = 1/96 (1%)
Query: 1 MSAVFEDW-NKGELDSFLIEITKDILKFKDTDGAPLVEKIKDYAGQKGTGKWTAISALDY 59
++AV EDW +K L S++++I+ + KD DG+ L E + D G KGTG W+A AL+
Sbjct: 216 VAAVLEDWKSKNFLKSYMLDISIAAARAKDKDGSYLTEHVMDRIGSKGTGLWSAQEALEI 275
Query: 60 GVPVTLIGESVFSRCLSSLFDERQKASQVLQGPNPT 95
GVP + +V SR + ERQ + G +
Sbjct: 276 GVPAPSLNMAVVSRQFTMYKTERQANASNAPGITQS 311
>4e21_A 6-phosphogluconate dehydrogenase (decarboxylating; structural
genomics, PSI-biology, NEW YORK structural genomi
research consortium; 2.30A {Geobacter metallireducens}
Length = 358
Score = 132 bits (334), Expect = 2e-38
Identities = 22/99 (22%), Positives = 49/99 (49%), Gaps = 8/99 (8%)
Query: 1 MSAVFEDWNKGE-LDSFLIEITKDILKFKDTDGAPLVEKIKDYAGQKGTGKWTAISALDY 59
++ + E W +G + S+L++++ L P +++ + G G+WT +A+D
Sbjct: 262 LADITEVWRRGSVISSWLLDLSATALLDS-----PDLQEFQGRVSDSGEGRWTVAAAIDE 316
Query: 60 GVPVTLIGESVFSRCLSSLFDERQKASQVLQGPNPTYKG 98
GVP ++ +++ R S D+ A+++L + G
Sbjct: 317 GVPAHVLSSALYERFSSRGEDDF--ANRLLSAMRYEFGG 353
>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 = 36.4 bits (83), Expect = 0.002
Identities = 27/161 (16%), Positives = 54/161 (33%), Gaps = 42/161 (26%)
Query: 4 VFED-WNKGELDSF------LIEITKDILKFKDTDGAPLVEKIKDYAGQKGTGKWTAISA 56
V + N ++F L+ T+ ++ D+ T T IS
Sbjct: 249 VLLNVQNAKAWNAFNLSCKILL-TTRFK-------------QVTDFLSAATT---THISL 291
Query: 57 LDYGVPVTLI-GESVFSRCLS-SLFDERQKASQVLQGPNP--------TYKGKDTTYFNF 106
+ + +T +S+ + L D ++ NP + + T+ N+
Sbjct: 292 DHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTT----NPRRLSIIAESIRDGLATWDNW 347
Query: 107 KDKGNS--GSPIQPSLEWLVALREKKTPLEKMKIF-ASVPI 144
K + I+ SL L E + +++ +F S I
Sbjct: 348 KHVNCDKLTTIIESSLNVLEP-AEYRKMFDRLSVFPPSAHI 387
Score = 32.5 bits (73), Expect = 0.045
Identities = 22/125 (17%), Positives = 46/125 (36%), Gaps = 22/125 (17%)
Query: 17 LIEITKDILKFKDTDGAPLVEKIKDYAGQKGTGKWT-AISAL-DYGVPVTLIGESVF--- 71
+++ + +L+ + + G G+GK A+ Y V + +F
Sbjct: 137 YLKLRQALLELRPAKNVLID-------GVLGSGKTWVALDVCLSYKV-QCKMDFKIFWLN 188
Query: 72 -SRCLS--SLFDERQKASQVLQGPNPTYKGKDTTYFNFKDKGNSGSPIQPSLEWLVALRE 128
C S ++ + QK + +P + + N K + +S IQ L L+ +
Sbjct: 189 LKNCNSPETVLEMLQKLLYQI---DPNWTSRSDHSSNIKLRIHS---IQAELRRLLKSKP 242
Query: 129 KKTPL 133
+ L
Sbjct: 243 YENCL 247
>3q3e_A HMW1C-like glycosyltransferase; N-glycosylation; 2.10A
{Actinobacillus pleuropneumoniae serovaorganism_taxid}
PDB: 3q3h_A* 3q3i_A
Length = 631
Score = 32.6 bits (74), Expect = 0.033
Identities = 6/29 (20%), Positives = 8/29 (27%), Gaps = 1/29 (3%)
Query: 52 TAISALDYGVPV-TLIGESVFSRCLSSLF 79
I + G+ G V LF
Sbjct: 533 GIIDMVTLGLVGVCKTGAEVHEHIDEGLF 561
>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein
O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB:
2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*
Length = 568
Score = 29.4 bits (66), Expect = 0.37
Identities = 15/38 (39%), Positives = 17/38 (44%), Gaps = 6/38 (15%)
Query: 42 YAGQKGTGKWTAISALDYGVPV-TLIGESVFSRCLSSL 78
Y T TA AL G PV T GE+ +R SL
Sbjct: 463 YNA--HT---TASDALWTGCPVLTTPGETFAARVAGSL 495
>3tax_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase
110 kDa subunit...; thiocarbamate crosslink, covalent
inhibitor, gylcosyltransfe inhibitor, O-GLCNAC
transferase; HET: UDP; 1.88A {Homo sapiens} PDB: 3pe3_A*
3pe4_A*
Length = 723
Score = 29.4 bits (65), Expect = 0.39
Identities = 10/28 (35%), Positives = 16/28 (57%), Gaps = 1/28 (3%)
Query: 52 TAISALDYGVPV-TLIGESVFSRCLSSL 78
T + L G P+ T+ GE++ SR +S
Sbjct: 614 TGMDVLWAGTPMVTMPGETLASRVAASQ 641
>2vpz_A Thiosulfate reductase; oxidoreductase, molybdopterin guanine
dinucleotide, iron-sulfur, metal-binding, molybdopterin;
HET: MGD; 2.40A {Thermus thermophilus} PDB: 2vpx_A*
2vpw_A* 2vpy_A*
Length = 765
Score = 28.0 bits (63), Expect = 1.3
Identities = 10/29 (34%), Positives = 15/29 (51%), Gaps = 6/29 (20%)
Query: 34 PLVEKIKDYAGQKGTGKWTAIS---ALDY 59
PL I+ Q+G GK+ + ALD+
Sbjct: 98 PL---IRVEGSQRGEGKYRVATWEEALDH 123
>2f9y_B Acetyl-coenzyme A carboxylase carboxyl transferas beta; zinc
ribbon, crotonase superfamily, spiral domain, ligase;
3.20A {Escherichia coli} SCOP: c.14.1.4
Length = 304
Score = 27.2 bits (61), Expect = 2.2
Identities = 19/57 (33%), Positives = 28/57 (49%), Gaps = 9/57 (15%)
Query: 12 ELDSFLIEITKDILKFKDTDGAPLVEKIKDYAGQKGTGKWTAI---SALDYGVPVTL 65
EL S L KD+LKF+D+ +++ QK TG+ A+ YG+PV
Sbjct: 72 ELGSELE--PKDVLKFRDSKKYK--DRLASA--QKETGEKDALVVMKGTLYGMPVVA 122
>3g9w_C Integrin beta-1D; protein-protein complex, PH domain superfold, PTB
domain, HE bundle, intrinsically unstructured, cell
adhesion; 2.17A {Homo sapiens} PDB: 1kup_B 1kuz_B
Length = 52
Score = 25.2 bits (55), Expect = 2.5
Identities = 7/35 (20%), Positives = 14/35 (40%)
Query: 79 FDERQKASQVLQGPNPTYKGKDTTYFNFKDKGNSG 113
F++ + ++ NP YK + N +G
Sbjct: 17 FEKEKMNAKWDTQENPIYKSPINNFKNPNYGRKAG 51
>1s4x_A Integrin beta-3; cell adhesion; NMR {Homo sapiens} SCOP: j.60.1.1
PDB: 2ljd_A* 2lje_A* 2ljf_A*
Length = 67
Score = 25.3 bits (55), Expect = 3.5
Identities = 9/51 (17%), Positives = 19/51 (37%), Gaps = 10/51 (19%)
Query: 63 VTLIGESVFSRCLSSLFDER--------QKASQVLQGPNPTYKGKDTTYFN 105
+ G + L ++ D + + ++ NP YK +T+ N
Sbjct: 13 LVPRG--SHMKLLITIHDRKEFAKFEEERARAKWDTANNPLYKEATSTFTN 61
>2kv9_B Integrin beta-3; platelet glycoprotein IIIA, GPIIIA, C adhesion;
NMR {Homo sapiens}
Length = 75
Score = 24.9 bits (54), Expect = 5.1
Identities = 8/27 (29%), Positives = 14/27 (51%)
Query: 79 FDERQKASQVLQGPNPTYKGKDTTYFN 105
F+E + ++ NP YK +T+ N
Sbjct: 43 FEEERARAKWDTANNPLYKEATSTFTN 69
>3pls_A Macrophage-stimulating protein receptor; protein kinase, CIS
autophosphorylation conformation, recept tyrosine
kinase, AMP-PNP, unphosphorylated; HET: ANP; 2.24A {Homo
sapiens}
Length = 298
Score = 25.7 bits (57), Expect = 6.3
Identities = 7/25 (28%), Positives = 11/25 (44%), Gaps = 5/25 (20%)
Query: 42 YAGQKGTG-----KWTAISALDYGV 61
Y+ Q+ KWTA+ +L
Sbjct: 180 YSVQQHRHARLPVKWTALESLQTYR 204
>2ppg_A Putative isomerase; structural genomics, PSI-2, protein structure
INI NEW YORK SGX research center for structural
genomics, nysgx; 2.49A {Sinorhizobium meliloti}
Length = 399
Score = 25.7 bits (57), Expect = 6.4
Identities = 10/37 (27%), Positives = 15/37 (40%), Gaps = 11/37 (29%)
Query: 42 YAGQKGTGKWTAISALD----------YGVPV-TLIG 67
G G A++A+D G+PV L+G
Sbjct: 113 VRGYTGGFYVDALAAIDIALWDLAGKLAGLPVCKLLG 149
>1qdm_A Prophytepsin; aspartic proteinases, saposin-like domain, zymogen
structure, hydrolase; 2.30A {Hordeum vulgare} SCOP:
a.64.1.2 b.50.1.2
Length = 478
Score = 25.2 bits (55), Expect = 9.0
Identities = 13/46 (28%), Positives = 21/46 (45%)
Query: 65 LIGESVFSRCLSSLFDERQKASQVLQGPNPTYKGKDTTYFNFKDKG 110
L+ + VFS L+ DE + + G +P + + TY KG
Sbjct: 186 LVSDPVFSFWLNRHVDEGEGGEIIFGGMDPKHYVGEHTYVPVTQKG 231
>1gvd_A MYB proto-oncogene protein; transcription, transcription
regulation, C-MYB, DNA binding, ION binding, nuclear
protein; 1.45A {Mus musculus} SCOP: a.4.1.3 PDB: 1gv5_A
1mbg_A 1mbh_A
Length = 52
Score = 23.6 bits (52), Expect = 9.8
Identities = 3/19 (15%), Positives = 10/19 (52%)
Query: 37 EKIKDYAGQKGTGKWTAIS 55
+++ + G +W+ I+
Sbjct: 12 QRLIKLVQKYGPKRWSVIA 30
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 0.134 0.394
Gapped
Lambda K H
0.267 0.0715 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,191,298
Number of extensions: 116179
Number of successful extensions: 254
Number of sequences better than 10.0: 1
Number of HSP's gapped: 251
Number of HSP's successfully gapped: 27
Length of query: 145
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 60
Effective length of database: 4,328,508
Effective search space: 259710480
Effective search space used: 259710480
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: 42 (21.9 bits)
S2: 52 (23.8 bits)