RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 027366
(224 letters)
>2f1d_A IGPD 1, imidazoleglycerol-phosphate dehydratase 1; herbicide,
manganese, histidine biosynthesis, lyase; 3.00A
{Arabidopsis thaliana} SCOP: d.14.1.9 d.14.1.9
Length = 207
Score = 181 bits (462), Expect = 4e-58
Identities = 101/144 (70%), Positives = 111/144 (77%), Gaps = 28/144 (19%)
Query: 71 ASTSSAVDSGRIGEVKRVTKETNVSVKINVDGSGVADSSTCIPFLDHMLDQLASHGLFDV 130
AS+SS++ GRIGEVKRVTKETNVSVKIN+DG+GVADSS+ IPFLDHMLDQLASHGLFDV
Sbjct: 1 ASSSSSMALGRIGEVKRVTKETNVSVKINLDGTGVADSSSGIPFLDHMLDQLASHGLFDV 60
Query: 131 HVRATGDIHIDDHHTNEDVGLAIGTVTIQNGVSCFLCSSEMKFCCIISTFVVQALLQALG 190
HVRATGD+HIDDHHTNED+ LAIG ALL+ALG
Sbjct: 61 HVRATGDVHIDDHHTNEDIALAIG----------------------------TALLKALG 92
Query: 191 DRKGINRFGDFTAPLDEALIHVSL 214
+RKGINRFGDFTAPLDEALIHVSL
Sbjct: 93 ERKGINRFGDFTAPLDEALIHVSL 116
>2ae8_A IGPD, imidazoleglycerol-phosphate dehydratase; beta-alpha-beta
sandwich, duplication of A half-domain; 2.01A
{Staphylococcus aureus subsp} SCOP: d.14.1.9 d.14.1.9
Length = 221
Score = 170 bits (432), Expect = 2e-53
Identities = 40/143 (27%), Positives = 64/143 (44%), Gaps = 29/143 (20%)
Query: 72 STSSAVDSGRIGEVKRVTKETNVSVKINVDGSGVADSSTCIPFLDHMLDQLASHGLFDVH 131
S + + I + +R T ET +++ I+ D + +T + FL+HML H ++
Sbjct: 21 SNIGSGSNAMIYQKQRNTAETQLNISIS-DDQSPSHINTGVGFLNHMLTLFTFHSGLSLN 79
Query: 132 VRATGDIHIDDHHTNEDVGLAIGTVTIQNGVSCFLCSSEMKFCCIISTFVVQALLQALGD 191
+ A GDI +DDHH ED+G+ IG Q LL+ + D
Sbjct: 80 IEAQGDIDVDDHHVTEDIGIVIG----------------------------QLLLEMIKD 111
Query: 192 RKGINRFGDFTAPLDEALIHVSL 214
+K R+G P+DE L V +
Sbjct: 112 KKHFVRYGTMYIPMDETLARVVV 134
>1rhy_A IGPD, imidazole glycerol phosphate dehydratase; dehydratases,
histidine biosynthesis, LEFT-handed B-A-B CROS motif,
gene duplication; 2.30A {Filobasidiella neoformans}
SCOP: d.14.1.9 d.14.1.9
Length = 202
Score = 167 bits (425), Expect = 1e-52
Identities = 52/139 (37%), Positives = 69/139 (49%), Gaps = 33/139 (23%)
Query: 81 RIGEVKRVTKETNVSVKINVD-----GSGVADSSTCIPFLDHMLDQLASHGLFDVHVRAT 135
RI V+R T ET++S I++D + ST I FLDHM LA HG + ++
Sbjct: 4 RIASVERTTSETHISCTIDLDHIPGVTEQKINVSTGIGFLDHMFTALAKHGGMSLQLQCK 63
Query: 136 GDIHIDDHHTNEDVGLAIGTVTIQNGVSCFLCSSEMKFCCIISTFVVQALLQALGDRKGI 195
GD+HIDDHHT ED LA+G +A +ALG+RKGI
Sbjct: 64 GDLHIDDHHTAEDCALALG----------------------------EAFKKALGERKGI 95
Query: 196 NRFGDFTAPLDEALIHVSL 214
R+G APLDE+L +
Sbjct: 96 KRYGYAYAPLDESLSRAVI 114
>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 = 45.4 bits (107), Expect = 7e-06
Identities = 48/271 (17%), Positives = 78/271 (28%), Gaps = 93/271 (34%)
Query: 7 ARLVHLSISSTSSRRL----------LVKPKTNLSRKLL---PIS------TQ---YCSS 44
L L ++ + ++ L P + L PIS Q Y +
Sbjct: 193 ETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVT 252
Query: 45 TRRMNSLTTP---RASLNPDGDSKHNNG--SASTSSAVDSGR---------------IG- 83
+ + TP R+ L G + H+ G +A + DS IG
Sbjct: 253 AKLLG--FTPGELRSYLK--GATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGV 308
Query: 84 EVKRVTKETNVSVKINVDGSGVADSSTC---IPFLDHMLDQLASHGLFDVHVRATGDIHI 140
T++ I + DS +P ML + L V+ ++
Sbjct: 309 RCYEAYPNTSLPPSI------LEDSLENNEGVP--SPML---SISNLTQEQVQD----YV 353
Query: 141 D--DHHTNEDVGLAIGTVTIQNGVSCFLCS----SEMKFCCII-STFVVQALLQA---LG 190
+ + H + I V NG + S S + L Q+
Sbjct: 354 NKTNSHLPAGKQVEISLV---NGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFS 410
Query: 191 DRK--GINRFGDFTAPLDEALIHVSLVCLFH 219
+RK NRF +P FH
Sbjct: 411 ERKLKFSNRFLPVASP-------------FH 428
Score = 35.4 bits (81), Expect = 0.013
Identities = 26/151 (17%), Positives = 45/151 (29%), Gaps = 59/151 (39%)
Query: 6 PARLVHLSISSTSSRRLLVKPKTNLS------RKL------LPIS----TQYCSSTRRM- 48
P L L+ + R+ + S RKL LP++ + +
Sbjct: 383 PQSLYGLN---LTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLI 439
Query: 49 ------NSLTTPRASLN-P-----DG-DSKHNNGS---------------------ASTS 74
N+++ + P DG D + +GS +
Sbjct: 440 NKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKAT 499
Query: 75 SAVDSGRIGEVKRVTKETNVSVKINVDGSGV 105
+D G G + T+ N DG+GV
Sbjct: 500 HILDFGP-GGASGLGVLTHR----NKDGTGV 525
>4ew6_A D-galactose-1-dehydrogenase protein; nysgrc, PSI-biology,
structural genomics, NEW YORK structura genomics
research consortium, two domain; 2.30A {Rhizobium etli}
Length = 330
Score = 30.1 bits (68), Expect = 0.56
Identities = 21/145 (14%), Positives = 40/145 (27%), Gaps = 24/145 (16%)
Query: 76 AVDSGRIGEVKRVTKET----NVSVKINVDGSGVADSSTCIPFLD---HMLDQLASHGLF 128
+ S I V + KE + + G + D + L + +
Sbjct: 153 FLASTTIKSVHVIWKEDVRHWHPNQDWIWQAGG-------LGVFDPGINALSIV--THIL 203
Query: 129 DVHVRATGDI-HIDDHHTNEDVGLAIGTVTIQNGVSCFLCSS-----EMKFCCIISTFVV 182
V TG + ++ A +G+ + + + T
Sbjct: 204 PRPVFITGAVLEFPENRDAPIA--ADIHFRDADGLPVHAEFDWRQTGKQSWDIVAETAAG 261
Query: 183 QALLQALGDRKGINRFGDFTAPLDE 207
Q +L G + I+ F P E
Sbjct: 262 QMVLSEGGAKLSIDGRLTFAEPEQE 286
>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 = 29.8 bits (66), Expect = 0.81
Identities = 24/224 (10%), Positives = 67/224 (29%), Gaps = 60/224 (26%)
Query: 10 VH-LSISSTSSRRLLVKPKTNLSRKLLPISTQYCSSTRRMNSLTTPRASLNPDGDSKHNN 68
+ L++ + +S +++ L ++ P T
Sbjct: 184 IFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDH------------------------ 219
Query: 69 GSASTSSAVDSGRIGEVKRVTKETNVSVKINVDGSGVADSSTCIPFLDHMLD-QLASHGL 127
S++ + S + E++R+ K C+ L ++ + + +
Sbjct: 220 -SSNIKLRIHSIQ-AELRRLLKS--------------KPYENCLLVLLNVQNAKAWNA-- 261
Query: 128 FDVHVR---ATGDIHIDD-----HHTNEDVGLAIGTVTIQNGVSCFLCSSEMKF------ 173
F++ + T + D T+ + T+T S L + +
Sbjct: 262 FNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPRE 321
Query: 174 CCIISTFVVQALLQALGDRKGINRFGDFTAPLDEALIHVSLVCL 217
+ + +++ R G+ + ++ + L + L
Sbjct: 322 VLTTNPRRL-SIIAES-IRDGLATWDNWKHVNCDKLTTIIESSL 363
>3db2_A Putative NADPH-dependent oxidoreductase; two domain protein,
rossman fold, putative dehydrogenase, ST genomics; 1.70A
{Desulfitobacterium hafniense dcb-2}
Length = 354
Score = 28.5 bits (64), Expect = 1.7
Identities = 14/109 (12%), Positives = 28/109 (25%), Gaps = 27/109 (24%)
Query: 76 AVDSGRIGEVKRVTKETNVSVKINVDGSGVADSSTCIPFLDH-------MLDQLASHG-- 126
+D+ IGEV S++ + + + H
Sbjct: 138 MIDTKEIGEV--------SSIEAVFSNERGLELKKGNWRGEPATAPGGPLTQL-GVHQID 188
Query: 127 ----LFD--VHVRATGDIHIDDHHTNEDVGLAIGTVTIQNGVSCFLCSS 169
L V G + N V + ++G +L ++
Sbjct: 189 NLQFLLGPVARVFNFGKPMYTE-VENITV--NQTLLEFEDGKQAYLGTN 234
>2vzs_A CSXA, EXO-beta-D-glucosaminidase; hydrolase, GH2, glucosamine,
glycoside hydrolase; HET: GCS; 1.85A {Amycolatopsis
orientalis} SCOP: b.1.4.1 b.1.4.1 b.1.4.1 b.18.1.5
c.1.8.3 PDB: 2x05_A* 2x09_A* 2vzo_A 2vzt_A* 2vzv_A*
2vzu_A*
Length = 1032
Score = 28.5 bits (63), Expect = 1.9
Identities = 8/33 (24%), Positives = 15/33 (45%), Gaps = 2/33 (6%)
Query: 129 DVHVRATGDIHIDDHH--TNEDVGLAIGTVTIQ 159
DV VR +G + + H + L +T++
Sbjct: 218 DVLVRRSGAVALRSAHVIQKLNSALDHADLTVK 250
>3ip3_A Oxidoreductase, putative; structural genomics, PSI-2, protein
structure initiative, NEW YORK SGX research center for
structural genomics; 2.14A {Thermotoga maritima}
Length = 337
Score = 28.1 bits (63), Expect = 2.2
Identities = 21/104 (20%), Positives = 33/104 (31%), Gaps = 18/104 (17%)
Query: 76 AVDSGRIGEVKRVTKETNVSVKINVDGSGVADSSTCI-PFLD---HMLDQLASHGLF--- 128
V G +GE++ V T S K+ T H +D + +
Sbjct: 141 LVSEGAVGEIRLVN--TQKSYKLGQRPDFYKKRETYGGTIPWVGIHAIDWI----HWITG 194
Query: 129 --DVHVRATGDIHIDDHHTN-EDVGLAIGTVTIQNGVSCFLCSS 169
+ V AT + H E A+ T++N V L
Sbjct: 195 KKFLSVYATHSRLHNSGHGELET--TALCHFTLENEVFASLSID 236
>1yq2_A Beta-galactosidase; glycosyl hydrolase family 2, TIM barrel,
hexamer; 1.90A {Arthrobacter SP} SCOP: b.1.4.1 b.1.4.1
b.18.1.5 b.30.5.1 c.1.8.3
Length = 1024
Score = 28.3 bits (63), Expect = 2.4
Identities = 12/45 (26%), Positives = 18/45 (40%), Gaps = 5/45 (11%)
Query: 120 DQLASHGLF-DVHVRATGDIHIDDHHT----NEDVGLAIGTVTIQ 159
DQ G+F DV ++A I D + G GT+ +
Sbjct: 202 DQWWLPGIFRDVTLQARPAGGITDAWLRTGWSARSGAGTGTIDPE 246
>3moi_A Probable dehydrogenase; structural genomics, PSI2, MCSG, protein
structure initiativ midwest center for structural
genomics; 2.50A {Bordetella bronchiseptica}
Length = 387
Score = 28.2 bits (63), Expect = 2.6
Identities = 15/109 (13%), Positives = 26/109 (23%), Gaps = 28/109 (25%)
Query: 76 AVDSGRIGEVKRVTKETNVSVKIN---------VDGSGVADSSTCIPFLD---HMLDQLA 123
V G +G V + G G + H +D +
Sbjct: 136 IVQEGSVGRVSMLNCFNYTDFLYRPRRPEELDTSKGGG--------IIYNQLPHQIDSI- 186
Query: 124 SHGLFD---VHVRATGDIHIDDHHTNEDVGLAIGTVTIQNGVSCFLCSS 169
+ VRA G +T+++G + S
Sbjct: 187 -KTITGQRITAVRAMTGRL---DPKRPTEGNCAAMLTLEDGACAVMVYS 231
>1zh8_A Oxidoreductase; TM0312, structural genomics, JO center for
structural genomics, JCSG, protein structure INI PSI;
HET: MSE NAP; 2.50A {Thermotoga maritima} SCOP: c.2.1.3
d.81.1.5
Length = 340
Score = 27.6 bits (62), Expect = 3.4
Identities = 17/109 (15%), Positives = 30/109 (27%), Gaps = 19/109 (17%)
Query: 76 AVDSGRIGEVKRVTKETNVSVKINVDGSGVADSSTCIP------FLD---HMLDQLASHG 126
V+SG IG+ + + V ++ + V P D H A
Sbjct: 154 LVESGAIGDPVFMN--WQIWVGMDENNKYVHTDWRKKPKHVGGFLSDGGVHHAA--AMRL 209
Query: 127 LFD--VHVRATGDIHIDDHHTNEDVGLAIGTVTIQNGVS-CFLCSSEMK 172
+ + A + D +NG + S +K
Sbjct: 210 ILGEIEWISAVAK-DLSPLLGGMD--FLSSIFEFENGTVGNYTISYSLK 255
>1o97_C Electron transferring flavoprotein beta-subunit; FAD binding; HET:
AMP FAD; 1.6A {Methylophilus methylotrophus} SCOP:
c.26.2.3 PDB: 1o95_C* 1o96_A* 1o94_C* 3clr_C* 3cls_C*
3clt_C* 3clu_C*
Length = 264
Score = 27.2 bits (61), Expect = 4.2
Identities = 6/21 (28%), Positives = 8/21 (38%), Gaps = 1/21 (4%)
Query: 85 VKRVTKETNVSVKINVDGSGV 105
VK+ +I DG V
Sbjct: 7 VKQTA-ALEEDFEIREDGMDV 26
>3e18_A Oxidoreductase; dehydrogenase, NAD-binding, structural genom
protein structure initiative, PSI, NEW YORK structural
GENO research consortium; HET: NAD; 1.95A {Listeria
innocua}
Length = 359
Score = 27.3 bits (61), Expect = 4.5
Identities = 19/111 (17%), Positives = 37/111 (33%), Gaps = 35/111 (31%)
Query: 76 AVDSGRIGEVKRVT-------------KETNVSVKINVDGSGVADSSTCIPFLD---HML 119
+ IGE+ + + G G LD H+L
Sbjct: 137 MFEQKTIGEMFHLESRVHGANGIPGDWRHL------KAHGGG--------MVLDWGVHLL 182
Query: 120 DQLASHGLFDVHVRA-TGDIHIDDHHTNEDVGLAIGTVTIQNGVSCFLCSS 169
DQL L D +V++ + ++ +D + +T +NG++ +
Sbjct: 183 DQLLF--LVDSNVKSVSANLSFALGDEVDDG--FVTFITFENGITAQIEVG 229
>3e82_A Putative oxidoreductase; NAD, GFO/IDH/MOCA family, PSI-2, NYSGXRC,
11136F, structural genomics, protein structure
initiative; 2.04A {Klebsiella pneumoniae subsp}
Length = 364
Score = 27.3 bits (61), Expect = 4.8
Identities = 24/115 (20%), Positives = 39/115 (33%), Gaps = 29/115 (25%)
Query: 76 AVDSGRIGEVKRVT-------KETNVSVK-INVDGSGVADSSTCIPFLD---HMLDQLAS 124
++ G +G VK E V + NV GSG+ + D H++DQ
Sbjct: 139 VIEQGTLGAVKHFESHFDRFRPEVRVRWREQNVPGSGL--------WFDLGPHLIDQALQ 190
Query: 125 HGLFDVHVRATGDI-HIDDHHTNEDVGLAI-----GTVTIQNGVSCFLCSSEMKF 173
LF + G+I + D D + V + S + +F
Sbjct: 191 --LFGLPQSVQGNIATLRDGAEINDWAHVVLNYPAHKVILH--CSMLVAGGSSRF 241
>3p9c_A Caffeic acid O-methyltransferase; S-adenosylmethionine dependent
O-methyltransferase; HET: SAH; 1.80A {Lolium perenne}
PDB: 3p9i_A* 3p9k_A*
Length = 364
Score = 27.1 bits (60), Expect = 5.0
Identities = 9/47 (19%), Positives = 16/47 (34%)
Query: 104 GVADSSTCIPFLDHMLDQLASHGLFDVHVRATGDIHIDDHHTNEDVG 150
A + +D +L LAS+ + V D + + V
Sbjct: 67 PSAANPEAPDMVDRILRLLASYNVVTCLVEEGKDGRLSRSYGAAPVC 113
>2glx_A 1,5-anhydro-D-fructose reductase; NADP(H) dependent reductase,
rossmann-fold, sugar metabolism, 1,5-anhydro-D-mannitol,
oxidoreductase; HET: NDP; 2.20A {Ensifer adhaerens}
Length = 332
Score = 26.9 bits (60), Expect = 5.5
Identities = 18/108 (16%), Positives = 25/108 (23%), Gaps = 25/108 (23%)
Query: 76 AVDSGRIGEVKRVT---------KETNVSVKINVDGSGVADSSTCIPFLD---HMLDQLA 123
A+ GRIG ++ G G LD H D
Sbjct: 134 AIAEGRIGRPIAARVFHAVYLPPHLQGWRLERPEAGGG--------VILDITVHDAD-TL 184
Query: 124 SH--GLFDVHVRATGDIHIDDHHTNEDVGLAIGTVTIQNGVSCFLCSS 169
A ED +G + Q+GV +
Sbjct: 185 RFVLNDDPAEAVAISHSAGMGKEGVED--GVMGVLRFQSGVIAQFHDA 230
>3ovx_A Cathepsin S; hydrolase, covalent inhibitor, aldehyde warhead is
covalently bound to Cys25, lysosomeal protein; HET: O64;
1.49A {Homo sapiens} PDB: 2h7j_A* 2f1g_A* 2hh5_B*
2hhn_A* 2hxz_A* 2op3_A* 2frq_A* 2fra_A* 2fq9_A* 2ft2_A*
2fud_A* 2g7y_A* 1ms6_A* 2r9m_A* 2r9n_A* 2r9o_A* 3n3g_A*
3n4c_A* 3mpe_A* 1nqc_A* ...
Length = 218
Score = 26.7 bits (60), Expect = 5.8
Identities = 8/31 (25%), Positives = 13/31 (41%), Gaps = 7/31 (22%)
Query: 94 VSVKINVDG-------SGVADSSTCIPFLDH 117
VSV ++ SGV +C ++H
Sbjct: 135 VSVGVDARHPSFFLYRSGVYYEPSCTQNVNH 165
>1efp_B ETF, protein (electron transfer flavoprotein); electron transport,
glutaric acidemia type II; HET: FAD AMP; 2.60A
{Paracoccus denitrificans} SCOP: c.26.2.3
Length = 252
Score = 26.1 bits (58), Expect = 8.5
Identities = 10/21 (47%), Positives = 14/21 (66%), Gaps = 1/21 (4%)
Query: 85 VKRVTKETNVSVKINVDGSGV 105
VKR+ + NV ++ DGSGV
Sbjct: 7 VKRLI-DYNVKARVKSDGSGV 26
>2c0y_A Procathepsin S; proenzyme, proteinase, hydrolase, thiol protease,
prosegment binding loop, glycoprotein, lysosome,
protease, zymogen; 2.1A {Homo sapiens}
Length = 315
Score = 26.4 bits (59), Expect = 8.9
Identities = 8/31 (25%), Positives = 13/31 (41%), Gaps = 7/31 (22%)
Query: 94 VSVKINVDG-------SGVADSSTCIPFLDH 117
VSV ++ SGV +C ++H
Sbjct: 232 VSVGVDARHPSFFLYRSGVYYEPSCTQNVNH 262
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
0.320 0.133 0.384
Gapped
Lambda K H
0.267 0.0679 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,218,549
Number of extensions: 178781
Number of successful extensions: 389
Number of sequences better than 10.0: 1
Number of HSP's gapped: 385
Number of HSP's successfully gapped: 28
Length of query: 224
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 134
Effective length of database: 4,188,903
Effective search space: 561313002
Effective search space used: 561313002
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: 55 (25.1 bits)