RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 023442
(282 letters)
>3b0p_A TRNA-dihydrouridine synthase; TIM barrel, oxidoreductase; HET: FMN;
1.70A {Thermus thermophilus} PDB: 3b0u_X* 3b0v_C*
Length = 350
Score = 281 bits (722), Expect = 2e-94
Identities = 72/254 (28%), Positives = 122/254 (48%), Gaps = 12/254 (4%)
Query: 4 CGCPSPKVAGHGCFGVSLMLDPKFVGEAMSVIAANTNVPVSVKCRIGVDDHDSYNQLCDF 63
GCPS K G +G L+LD V E + + VPV+VK R+G++ ++Y L
Sbjct: 91 LGCPSEKA-QEGGYGACLLLDLARVREILKAMGEAVRVPVTVKMRLGLEGKETYRGLAQS 149
Query: 64 IYKVSSLSPTRHFIIHSRKALLNGISPAENRTIPPLKYEYYYALLRDFPDLTFTLNGGIN 123
+ ++ + + F++H+R ALL +S NR IPPL++++ + L DFP LTF NGGI
Sbjct: 150 VEAMAE-AGVKVFVVHARSALL-ALSTKANREIPPLRHDWVHRLKGDFPQLTFVTNGGIR 207
Query: 124 TVDEVNAALRKGAHHVMVGRAAYQNPWYTLGHVDTAIYGAPSSGLTRRQVVEKYQIYGDA 183
+++E L K VM+GRA Y++P+ L D ++G P +R +V + + Y +
Sbjct: 208 SLEEALFHL-KRVDGVMLGRAVYEDPFV-LEEADRRVFGLPRR-PSRLEVARRMRAYLEE 264
Query: 184 ILGTYGNNRPHVRDVMKPLLHFFHSEPGNGLFKRK--ADAAFQTCKTVKSFLEETIVAIP 241
+ V++ +L+ F P L++R + Q +EE +
Sbjct: 265 EVLKGT----PPWAVLRHMLNLFRGRPKGRLWRRLLSEGRSLQALDRALRLMEEEVGEEG 320
Query: 242 DSVLDSPIEEAPRG 255
+ P +
Sbjct: 321 EKEKPGPRGQREAA 334
>1vhn_A Putative flavin oxidoreducatase; structural genomics, unknown
function; HET: FMN; 1.59A {Thermotoga maritima} SCOP:
c.1.4.1
Length = 318
Score = 71.4 bits (176), Expect = 2e-14
Identities = 33/152 (21%), Positives = 60/152 (39%), Gaps = 26/152 (17%)
Query: 4 CGCPSPKVAGHGCFGVSLMLDPKFVGEAMSVIAANTNVPVSVKCRIGVDDHDSYNQLCDF 63
GCP KV G G +L+ D + + + + + SVK R+G + + ++
Sbjct: 91 AGCPVRKVVKEGA-GGALLKDLRHFRYIVRELRKSVSGKFSVKTRLGWEK-NEVEEIYRI 148
Query: 64 IYK--VSSLSPTRHFIIH--SRKALLNGISPAENRTIPPLKYEYYYALLRDFPDLTFTLN 119
+ + V + IH + G AE + + L+ + P ++
Sbjct: 149 LVEEGVDEVF------IHTRTVVQSFTG--RAEWKALSVLE--------KRIP---TFVS 189
Query: 120 GGINTVDEVNAALRK-GAHHVMVGRAAYQNPW 150
G I T ++ AL + G ++V R A PW
Sbjct: 190 GDIFTPEDAKRALEESGCDGLLVARGAIGRPW 221
>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 = 43.7 bits (102), Expect = 5e-05
Identities = 42/280 (15%), Positives = 73/280 (26%), Gaps = 76/280 (27%)
Query: 26 KFVGEAMSVIAANTN-----VPVSVKCRIGVDDHDSYNQLCDFIYKVSSLSPTRHFIIHS 80
KFV E + N P+ + R Y + D +Y + + + S
Sbjct: 81 KFVEEVL-----RINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNV---S 132
Query: 81 RKALLNGISPAENRTIPPLKYEYYYALLRDFPDLTFTLNG--GI-NTVDEVNAALRKGAH 137
R + R ALL P ++G G T
Sbjct: 133 RLQPYLKL-----RQ----------ALLELRPAKNVLIDGVLGSGKTW-VALDVCLSYKV 176
Query: 138 HVMVGRAAYQNPWYTLGHVDTAIYGAPSSGLTR-----RQVVEKYQIYGDAILGTYGNNR 192
+ + W L + ++ P + L Q+ + D N +
Sbjct: 177 QCKMDFKIF---WLNLKNCNS-----PETVLEMLQKLLYQIDPNWTSRSDHSS----NIK 224
Query: 193 PHVRDVMKPLLHFFHSEPG-NGLF-------KRKADAAFQ-TCKTV-----KSFLEETIV 238
+ + L S+P N L + + AF +CK + K T
Sbjct: 225 LRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWN-AFNLSCKILLTTRFKQV---TDF 280
Query: 239 AIPDSVLDSPIEEAPRG-----REDLFADVHDL----LPP 269
+ ++ + L D LP
Sbjct: 281 LSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPR 320
Score = 38.7 bits (89), Expect = 0.002
Identities = 41/236 (17%), Positives = 71/236 (30%), Gaps = 69/236 (29%)
Query: 19 VSL-MLDPK-----FVGEAMSVIAANTNVPVSVKCR-----IGVDDHDSYNQLCDFIYKV 67
SL +L+P F + +SV + ++P + I D N+L
Sbjct: 361 SSLNVLEPAEYRKMF--DRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHK----- 413
Query: 68 SSL-----SPTRHFI--IHSRKALLNGISPAENRTIPPLKYEYYYALLRDFPDLTFTLNG 120
SL + I I+ + A +R+I + +Y + + F
Sbjct: 414 YSLVEKQPKESTISIPSIYLELKVKLENEYALHRSI--VD---HYNIPKTFDSDDLIP-- 466
Query: 121 GINTVDEVNAALRKG------AHHV----MVGRAAYQNPWYT--------LGHVDTAIYG 162
+D HH+ R + + H TA +
Sbjct: 467 --PYLD--------QYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTA-WN 515
Query: 163 APSSGLTRRQVVEKYQIYGDAILGTYGNNRPHVRDVMKPLLHFFHSEPGNGLFKRK 218
A S L Q ++ Y+ Y I +N P ++ +L F L K
Sbjct: 516 ASGSILNTLQQLKFYKPY---IC----DNDPKYERLVNAILDFLPK-IEENLICSK 563
>1ka9_F Imidazole glycerol phosphtate synthase; riken structural
genomics/proteomics initiative, RSGI, structural
genomics, transferase; 2.30A {Thermus thermophilus}
SCOP: c.1.2.1
Length = 252
Score = 36.3 bits (85), Expect = 0.006
Identities = 11/34 (32%), Positives = 18/34 (52%)
Query: 116 FTLNGGINTVDEVNAALRKGAHHVMVGRAAYQNP 149
T+ GG+ ++++ L GA V V AA + P
Sbjct: 78 LTVGGGVRSLEDARKLLLSGADKVSVNSAAVRRP 111
>1thf_D HISF protein; thermophIle, TIM-barrel, histidine biosynthesis,
lyase, phosphate-binding sites; 1.45A {Thermotoga
maritima} SCOP: c.1.2.1 PDB: 2wjz_A 2a0n_A* 1gpw_A
1vh7_A 2rkx_A 3iio_A 3iip_A* 3iiv_A
Length = 253
Score = 36.3 bits (85), Expect = 0.006
Identities = 12/34 (35%), Positives = 20/34 (58%)
Query: 116 FTLNGGINTVDEVNAALRKGAHHVMVGRAAYQNP 149
FT+ GGI+ + + + +GA V + AA +NP
Sbjct: 77 FTVGGGIHDFETASELILRGADKVSINTAAVENP 110
>1h5y_A HISF; histidine biosynthesis, TIM-barrel; 2.0A {Pyrobaculum
aerophilum} SCOP: c.1.2.1
Length = 253
Score = 35.9 bits (84), Expect = 0.007
Identities = 11/34 (32%), Positives = 18/34 (52%)
Query: 116 FTLNGGINTVDEVNAALRKGAHHVMVGRAAYQNP 149
+ GG+ ++++ R GA V V AA +NP
Sbjct: 80 VLVGGGVRSLEDATTLFRAGADKVSVNTAAVRNP 113
>3tdn_A FLR symmetric alpha-beta TIM barrel; symmetric superfold, de novo
protein; 1.40A {Synthetic construct} PDB: 3og3_A 3tdm_A
Length = 247
Score = 35.9 bits (84), Expect = 0.009
Identities = 10/34 (29%), Positives = 16/34 (47%)
Query: 116 FTLNGGINTVDEVNAALRKGAHHVMVGRAAYQNP 149
+GG ++ A +GA V + AA +NP
Sbjct: 82 IIASGGAGKMEHFLEAFLRGADKVSINTAAVENP 115
>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 = 35.4 bits (81), Expect = 0.020
Identities = 24/127 (18%), Positives = 37/127 (29%), Gaps = 33/127 (25%)
Query: 135 GAHHV-MVGRAAYQNPWYTLGHVDTAIYGAPSSGLTRRQVVEK-----YQIYGDAILGTY 188
G+ M G Y+ A + V + YG +IL
Sbjct: 1625 GSQEQGM-GMDLYKTS-------KAA-----------QDVWNRADNHFKDTYGFSILDIV 1665
Query: 189 GNNRPHVRDVMKPLLHFFHSEPGNGLFKRKADAAFQTCKTVKSFLEETIVAIPDSVLDSP 248
NN P L F E G + + + F+T K E+ I + S
Sbjct: 1666 INN-P------VNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEI-NEHSTSY 1717
Query: 249 IEEAPRG 255
+ +G
Sbjct: 1718 TFRSEKG 1724
Score = 35.0 bits (80), Expect = 0.027
Identities = 39/259 (15%), Positives = 72/259 (27%), Gaps = 77/259 (29%)
Query: 65 YKVSSLSPTRHFIIHSRKALLNGISPAENRTI----------PPLK-----YEYYYALLR 109
++ R F S AL + + + + Y+ Y+ L+
Sbjct: 127 ITARIMAK-RPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVG 185
Query: 110 DFPDLTF-TLNGGINTVDEVNAALRKGAHHVMVGRAAYQNPWYTLGHVDTAIYGAPSSGL 168
D + TL+ I T + +G + + P ++ + P G+
Sbjct: 186 DLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTP--DKDYLLSIPISCPLIGV 243
Query: 169 TRRQVVEKYQIYGDAILG-TYGNNRPHVRDVMKPLLHFFHSEPGNGLFKRKAD----AAF 223
Q+ Y + +LG T G R +++ G A
Sbjct: 244 I--QLAH-YVVTAK-LLGFTPGELRSYLK----------------GATGHSQGLVTAVAI 283
Query: 224 QTCKTVKSFLEETIVAI-------------------PDSVLDSPI---EEAP------RG 255
+ +SF AI P S+L+ + E P
Sbjct: 284 AETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISN 343
Query: 256 --REDLFADVHDL---LPP 269
+E + V+ LP
Sbjct: 344 LTQEQVQDYVNKTNSHLPA 362
Score = 28.5 bits (63), Expect = 3.0
Identities = 34/218 (15%), Positives = 61/218 (27%), Gaps = 83/218 (38%)
Query: 67 VSSLSPTRHFIIHS---RKALLNGISPAENRTIPPLKYEYYYALLRD-F----PDLTFTL 118
+ + S TR + LL +P + + + L++ F P+ T
Sbjct: 1 MDAYS-TRPLTLSHGSLEHVLL----------VPTASF-FIASQLQEQFNKILPEPTEGF 48
Query: 119 NGGINTVDEVNAALRKGAHHVMVGRAAYQNPWYTLGHVDTAIYGAPSSGLTRRQVVEKYQ 178
DE +VG+ + LG+V +VE
Sbjct: 49 AAD----DEPTTPAE------LVGK-------F-LGYVS--------------SLVEP-- 74
Query: 179 IYGDAILGTYGNNRPHVRDVMKPLLHFFHSE--PGN-------GLFKRKADAAFQTCKTV 229
+ V+ L F + GN L + +T + +
Sbjct: 75 -----------SKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELI 123
Query: 230 KSFLEETIVA------IPDSVLDSPIEEAPRGREDLFA 261
K+++ I+A +S L G L A
Sbjct: 124 KNYITARIMAKRPFDKKSNSAL---FRAVGEGNAQLVA 158
>3vk5_A MOEO5; TIM barrel, transferase; HET: FPQ; 1.39A {Streptomyces
ghanaensis} PDB: 3vka_A* 3vkb_A* 3vkc_A* 3vkd_A*
Length = 286
Score = 33.7 bits (76), Expect = 0.045
Identities = 14/55 (25%), Positives = 23/55 (41%), Gaps = 1/55 (1%)
Query: 112 PDLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAYQNPWYT-LGHVDTAIYGAPS 165
PD ++G + + +V L GA +V A Q W + L + AP+
Sbjct: 226 PDQVLFVSGNVRSGRQVTEYLDSGADYVGFAGALEQPDWRSALAEIAGRRPAAPA 280
>3igs_A N-acetylmannosamine-6-phosphate 2-epimerase 2; energy metabolism,
sugars, csgid, carbohydrate metabolism, isomerase; HET:
MSE 16G; 1.50A {Salmonella enterica subsp}
Length = 232
Score = 33.5 bits (76), Expect = 0.048
Identities = 15/56 (26%), Positives = 20/56 (35%), Gaps = 2/56 (3%)
Query: 91 AENRTIPPLKYEYYYALLRDFPDLTFTL--NGGINTVDEVNAALRKGAHHVMVGRA 144
T P E L++ D + G N+ A+R GA V VG A
Sbjct: 157 MSGYTTPDTPEEPDLPLVKALHDAGCRVIAEGRYNSPALAAEAIRYGAWAVTVGSA 212
>2w6r_A Imidazole glycerol phosphate synthase subunit HISF; lyase, fusion
protein, cobalamin, precorrin, novel fold, VIT; 2.10A
{Thermotoga maritima}
Length = 266
Score = 33.7 bits (78), Expect = 0.053
Identities = 5/34 (14%), Positives = 10/34 (29%)
Query: 116 FTLNGGINTVDEVNAALRKGAHHVMVGRAAYQNP 149
+GG ++ A GA + +
Sbjct: 77 IIASGGAGKMEHFLEAFLAGADKALAASVFHFRE 110
>3lvf_P GAPDH 1, glyceraldehyde-3-phosphate dehydrogenase 1;
oxidoreductase, glycolysis, rossmann fold; HET: NAD;
1.70A {Staphylococcus aureus} PDB: 3l6o_Q 3k73_Q 3lc2_O*
3lc7_O 3lc1_P* 3hq4_R* 3kv3_O* 3l4s_Q* 3k9q_Q* 3ksd_Q*
3ksz_O*
Length = 338
Score = 32.9 bits (76), Expect = 0.098
Identities = 8/24 (33%), Positives = 14/24 (58%)
Query: 113 DLTFTLNGGINTVDEVNAALRKGA 136
+LT L TV++VN A++ +
Sbjct: 246 ELTVVLEKQDVTVEQVNEAMKNAS 269
>2ep7_A GAPDH, glyceraldehyde-3-phosphate dehydrogenase; oxidoreductase,
structural genomics, NPPSFA; HET: NAD; 2.30A {Aquifex
aeolicus}
Length = 342
Score = 32.9 bits (76), Expect = 0.11
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 113 DLTFTLNGGINTVDEVNAALRKGA 136
DLT +N ++V+EVN R+ A
Sbjct: 243 DLTVVVNKAPSSVEEVNEKFREAA 266
>3hja_A GAPDH, glyceraldehyde-3-phosphate dehydrogenase; niaid, ssgcid,
decode, UW, SBRI, LYME disease, non-hodgkin lymphomas,
cytoplasm; HET: NAD; 2.20A {Borrelia burgdorferi B31}
Length = 356
Score = 32.5 bits (75), Expect = 0.12
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 113 DLTFTLNGGINTVDEVNAALRKGA 136
DLT L T +E+N+ LRK +
Sbjct: 265 DLTVQLKKKDVTKEEINSVLRKAS 288
>1obf_O Glyceraldehyde 3-phosphate dehydrogenase; glycolytic pathway,
oxidoreductase, free-NAD GAPDH; HET: PG4; 1.7A
{Achromobacter xylosoxidans} SCOP: c.2.1.3 d.81.1.1 PDB:
3gnq_A*
Length = 335
Score = 32.5 bits (75), Expect = 0.15
Identities = 11/34 (32%), Positives = 16/34 (47%), Gaps = 1/34 (2%)
Query: 113 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAY 146
DL+F TV+EVN L+ + + G Y
Sbjct: 245 DLSFVAKRNT-TVEEVNGILKAASEGELKGILDY 277
>1qo2_A Molecule: N-((5-phosphoribosyl)-formimino)-5-aminoimidazol-
4-carboxamid ribonucleotid...; isomerase, histidine
biosynthesis; 1.85A {Thermotoga maritima} SCOP: c.1.2.1
PDB: 2cff_A 2w79_A
Length = 241
Score = 31.8 bits (73), Expect = 0.18
Identities = 7/30 (23%), Positives = 13/30 (43%)
Query: 120 GGINTVDEVNAALRKGAHHVMVGRAAYQNP 149
GGI ++D + G +V ++P
Sbjct: 80 GGIRSLDYAEKLRKLGYRRQIVSSKVLEDP 109
>2x5j_O E4PDH, D-erythrose-4-phosphate dehydrogenase; oxidoreductase,
hydride transfer, aldehyde dehydrogenase, PY
biosynthesis; 2.30A {Escherichia coli} PDB: 2xf8_A*
2x5k_O*
Length = 339
Score = 32.1 bits (74), Expect = 0.18
Identities = 11/34 (32%), Positives = 16/34 (47%), Gaps = 1/34 (2%)
Query: 113 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAY 146
DL+ T+ + +EVN L+K A G Y
Sbjct: 246 DLSVTVKKPV-KANEVNLLLQKAAQGAFHGIVDY 278
>1y0e_A Putative N-acetylmannosamine-6-phosphate 2-epimer; mannac-6-P
epimerase, NANE, structural genomics, protein STR
initiative, PSI; 1.95A {Staphylococcus aureus subsp}
SCOP: c.1.2.5
Length = 223
Score = 31.4 bits (71), Expect = 0.21
Identities = 8/25 (32%), Positives = 11/25 (44%)
Query: 120 GGINTVDEVNAALRKGAHHVMVGRA 144
G + T D + G H +VG A
Sbjct: 182 GNVITPDMYKRVMDLGVHCSVVGGA 206
>3doc_A Glyceraldehyde 3-phosphate dehydrogenase; ssgcid, structural
genomics, PSI, protein structure initiative; HET: NAD;
2.40A {Brucella melitensis biovar ABORTUS2308} PDB:
3l0d_A*
Length = 335
Score = 31.7 bits (73), Expect = 0.24
Identities = 14/34 (41%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 113 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAY 146
DLTF TV+EVN A+R+ A+ + G Y
Sbjct: 244 DLTFIAKRET-TVEEVNNAIREAANGRLKGILGY 276
>3q58_A N-acetylmannosamine-6-phosphate 2-epimerase; TIM beta/alpha barrel,
ribulose-phosphate binding barrel, carbohydrate
metabolic process; HET: BTB; 1.80A {Salmonella enterica
subsp}
Length = 229
Score = 31.2 bits (70), Expect = 0.28
Identities = 10/25 (40%), Positives = 11/25 (44%)
Query: 120 GGINTVDEVNAALRKGAHHVMVGRA 144
G NT A+ GA V VG A
Sbjct: 188 GRYNTPALAANAIEHGAWAVTVGSA 212
>1yxy_A Putative N-acetylmannosamine-6-phosphate 2-epimer; structural
genomics, epimerase, PSI, structure initiative; 1.60A
{Streptococcus pyogenes} SCOP: c.1.2.5
Length = 234
Score = 31.1 bits (70), Expect = 0.29
Identities = 7/25 (28%), Positives = 12/25 (48%)
Query: 120 GGINTVDEVNAALRKGAHHVMVGRA 144
G I++ +E G ++VG A
Sbjct: 193 GKIHSPEEAKKINDLGVAGIVVGGA 217
>1hdg_O Holo-D-glyceraldehyde-3-phosphate dehydrogenase; oxidoreductase
(aldehy(D)-NAD(A)); HET: NAD; 2.50A {Thermotoga
maritima} SCOP: c.2.1.3 d.81.1.1
Length = 332
Score = 31.3 bits (72), Expect = 0.29
Identities = 11/34 (32%), Positives = 17/34 (50%), Gaps = 1/34 (2%)
Query: 113 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAY 146
DLT + TV+EVNA +++ + G Y
Sbjct: 242 DLTVLVEKET-TVEEVNAVMKEATEGRLKGIIGY 274
>2g82_O GAPDH, glyceraldehyde-3-phosphate dehydrogenase; G3PDH, glycolysis,
oxidoreductase, NAD, rossmann fold; HET: NAD PGE; 1.65A
{Thermus aquaticus} SCOP: c.2.1.3 d.81.1.1 PDB: 1cer_O*
1vc2_A*
Length = 331
Score = 31.3 bits (72), Expect = 0.31
Identities = 14/34 (41%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 113 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAY 146
D+T L + T +EVNAAL+ A + G AY
Sbjct: 240 DITALLKREV-TAEEVNAALKAAAEGPLKGILAY 272
>1vzw_A Phosphoribosyl isomerase A; histidine biosynthesis, tryptophan
biosynthesis; 1.8A {Streptomyces coelicolor} SCOP:
c.1.2.1 PDB: 2vep_A 2x30_A
Length = 244
Score = 31.0 bits (71), Expect = 0.32
Identities = 13/30 (43%), Positives = 16/30 (53%)
Query: 120 GGINTVDEVNAALRKGAHHVMVGRAAYQNP 149
GGI D + AAL G V +G AA + P
Sbjct: 82 GGIRDDDTLAAALATGCTRVNLGTAALETP 111
>4dib_A GAPDH, glyceraldehyde 3-phosphate dehydrogenase; niaid, structural
genomics, national institute of allergy AN infectious
diseases; 2.55A {Bacillus anthracis}
Length = 345
Score = 31.3 bits (72), Expect = 0.32
Identities = 8/34 (23%), Positives = 16/34 (47%), Gaps = 1/34 (2%)
Query: 113 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAY 146
DL + + TV+ +N A + A+ + G +
Sbjct: 245 DLVVDVKRDV-TVEAINDAFKTVANGALKGIVEF 277
>3b1j_A Glyceraldehyde 3-phosphate dehydrogenase (NADP+); alpha/beta fold,
oxidoreductase-protein binding complex; HET: NAD; 2.20A
{Synechococcus elongatus} PDB: 3b1k_A* 3b20_A*
Length = 339
Score = 30.9 bits (71), Expect = 0.37
Identities = 9/34 (26%), Positives = 14/34 (41%), Gaps = 1/34 (2%)
Query: 113 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAY 146
DL + ++VN L+K + M G Y
Sbjct: 246 DLVVQVEKPT-ITEQVNEVLQKASQTTMKGIIKY 278
>2d2i_A Glyceraldehyde 3-phosphate dehydrogenase; rossmann fold,
protein-NADP+ complex, oxidoreductase; HET: NAP; 2.50A
{Synechococcus SP} PDB: 2duu_A
Length = 380
Score = 31.0 bits (71), Expect = 0.45
Identities = 9/34 (26%), Positives = 14/34 (41%), Gaps = 1/34 (2%)
Query: 113 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAY 146
DL + ++VN L+K + M G Y
Sbjct: 246 DLVVQVEKPT-ITEQVNEVLQKASQTTMKGIIKY 278
>2y88_A Phosphoribosyl isomerase A; aromatic amino acid biosynthesis,
TIM-barrel, His biosynthesis, tryptophan biosynthesis;
HET: 2ER; 1.33A {Mycobacterium tuberculosis} PDB: 2y89_A
2y85_A*
Length = 244
Score = 30.6 bits (70), Expect = 0.45
Identities = 14/30 (46%), Positives = 17/30 (56%)
Query: 120 GGINTVDEVNAALRKGAHHVMVGRAAYQNP 149
GGI + + AAL G V VG AA +NP
Sbjct: 81 GGIRDDESLAAALATGCARVNVGTAALENP 110
>1rm4_O Glyceraldehyde 3-phosphate dehydrogenase A; rossmann fold,
GAPDH-NADP complex, oxidoreductase; HET: NDP; 2.00A
{Spinacia oleracea} SCOP: c.2.1.3 d.81.1.1 PDB: 1nbo_O*
2hki_A 2pkq_P* 1rm5_O* 1rm3_O* 2pkr_O* 1jn0_O* 3qv1_A*
3k2b_A* 3rvd_A* 2pkq_O*
Length = 337
Score = 30.5 bits (70), Expect = 0.51
Identities = 10/34 (29%), Positives = 17/34 (50%), Gaps = 1/34 (2%)
Query: 113 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAY 146
DL ++ +EVNAA R+ A + + G +
Sbjct: 244 DLVVQVSKKT-FAEEVNAAFRESADNELKGILSV 276
>1xrs_A D-lysine 5,6-aminomutase alpha subunit; TIM barrel, rossmann
domain, PLP, cobalamin, 5'-deoxyad radical,
adenosylcobalamin; HET: B12 PLP 5AD; 2.80A {Clostridium
sticklandii} SCOP: c.1.19.4
Length = 516
Score = 30.2 bits (68), Expect = 0.77
Identities = 13/54 (24%), Positives = 22/54 (40%), Gaps = 11/54 (20%)
Query: 125 VDEVNAALRKGAHHVMVGRAAYQNPWYTLGHVDTAIYGAPSSGL-----TRRQV 173
+ + AA ++GA + V R Q+ +D YGA + G T+
Sbjct: 166 ITQAVAAAKQGADVIAVIRTTGQS------LLDYVPYGATTEGFGGTYATQENF 213
>3cmc_O GAPDH, glyceraldehyde-3-phosphate dehydrogenase;
microspectrophotometry, reaction intermediate,
dehydrogenase phosphate binding site; HET: G3H NAD;
1.77A {Bacillus stearothermophilus} SCOP: c.2.1.3
d.81.1.1 PDB: 2gd1_O 1gd1_O* 1npt_O* 1nqa_O* 1nqo_O*
1nq5_O* 2dbv_O* 1dbv_O* 3dbv_O* 4dbv_O*
Length = 334
Score = 29.8 bits (68), Expect = 0.85
Identities = 15/34 (44%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 113 DLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAY 146
DL L + TV+EVNAAL+ A + G AY
Sbjct: 242 DLVAELEKEV-TVEEVNAALKAAAEGELKGILAY 274
>2gag_A Heterotetrameric sarcosine oxidase alpha-subunit; flavoenzyme,
electron transfer, folate-ME enzyme, oxidoreductase;
HET: NAD FAD FMN; 1.85A {Stenotrophomonas maltophilia}
PDB: 2gah_A* 1x31_A* 1vrq_A* 3ad7_A* 3ad8_A* 3ad9_A*
3ada_A*
Length = 965
Score = 29.9 bits (67), Expect = 1.2
Identities = 13/47 (27%), Positives = 21/47 (44%), Gaps = 2/47 (4%)
Query: 121 GINTVDEVNAALRKGAHHVMVGRAAYQNPWYTLGHVDTAIYGAPSSG 167
+ VD+ + L +GA V A + G V T+ Y +P+ G
Sbjct: 874 SVLPVDK-SLRLPEGAALVASDALASEGITPMEGWV-TSSYDSPNLG 918
>1jub_A Dihydroorotate dehydrogenase A; homodimer, alpha-beta barrel,
flavoprotein, mutant enzyme, oxidoreductase; HET: FMN;
1.40A {Lactococcus lactis} SCOP: c.1.4.1 PDB: 1ovd_A*
1jue_A* 1dor_A* 2bsl_A* 2bx7_A* 2dor_A* 1jqv_A* 1jrb_A*
1jrc_A* 1jqx_A*
Length = 311
Score = 29.1 bits (66), Expect = 1.6
Identities = 23/173 (13%), Positives = 44/173 (25%), Gaps = 54/173 (31%)
Query: 8 SPKVAGHGCFGVSLMLDPKFVGEAMSVIAANTNVPVSVK-------------CRIGVDDH 54
P V G D + + + + P+ VK I
Sbjct: 130 CPNVPGEPQLAY----DFEATEKLLKEVFTFFTKPLGVKLPPYFDLVHFDIMAEILNQFP 185
Query: 55 DSYNQLCDFIYKVSSLSPTRHFIIHSRKALLNGISPAENRTI------PPLK-------Y 101
++ V+S+ + ++ + + +K
Sbjct: 186 ------LTYVNSVNSIGNGLFIDPEAESVVI------KPKDGFGGIGGAYIKPTALANVR 233
Query: 102 EYYYALLRDFPDLTFTLN----GGINTVDEVNAALRKGAHHVMVGRAA-YQNP 149
+Y L + GGI T + L GA + +G A + P
Sbjct: 234 AFYTRLKPEIQ-------IIGTGGIETGQDAFEHLLCGATMLQIGTALHKEGP 279
>3jr2_A Hexulose-6-phosphate synthase SGBH; 3-keto-L-gulonate-6-phosphate
decarboxylase, ULAD, niaid,CSG bound, biosynthetic
protein; HET: MSE; 1.80A {Vibrio cholerae} PDB: 3ieb_A*
Length = 218
Score = 28.0 bits (62), Expect = 3.1
Identities = 9/46 (19%), Positives = 15/46 (32%), Gaps = 3/46 (6%)
Query: 106 ALLRDFPDLTFTLN--GGINTVDEVNAALRKGAHHVMVGRAAYQNP 149
+R L L+ GGI +++ + GRA
Sbjct: 157 DKMRQLSALGIELSITGGIV-PEDIYLFEGIKTKTFIAGRALAGAE 201
>3ajx_A 3-hexulose-6-phosphate synthase; HPS, OMPDC suprafamily, LYA; 1.60A
{Mycobacterium gastri}
Length = 207
Score = 27.3 bits (60), Expect = 4.4
Identities = 8/30 (26%), Positives = 12/30 (40%), Gaps = 1/30 (3%)
Query: 120 GGINTVDEVNAALRKGAHHVMVGRAAYQNP 149
GG+ + A + GA + G A Y
Sbjct: 165 GGVKV-ATIPAVQKAGAEVAVAGGAIYGAA 193
>3exr_A RMPD (hexulose-6-phosphate synthase); beta barrel, lyase; 1.70A
{Streptococcus mutans} PDB: 3exs_A* 3ext_A
Length = 221
Score = 27.2 bits (60), Expect = 4.7
Identities = 6/36 (16%), Positives = 13/36 (36%), Gaps = 1/36 (2%)
Query: 112 PDLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAYQ 147
++ GG++ VD + + GR +
Sbjct: 167 MGFRVSVTGGLS-VDTLKLFEGVDVFTFIAGRGITE 201
>3h3h_A Uncharacterized snoal-like protein; structural genomics, joint
center for structural genomics, J protein structure
initiative; HET: MSE UNL MES; 1.60A {Burkholderia
thailandensis E264}
Length = 122
Score = 26.6 bits (58), Expect = 4.8
Identities = 10/27 (37%), Positives = 12/27 (44%)
Query: 102 EYYYALLRDFPDLTFTLNGGINTVDEV 128
Y+ LR PDL F + VD V
Sbjct: 63 AYWREALRMIPDLHFEWIATLAGVDSV 89
>2e6f_A Dihydroorotate dehydrogenase; chagas disease, pyrimidine
biosynthesis, fumarate reductase, energy metabolism,
redox homeostasis, flavoprotein; HET: FMN OXC; 1.26A
{Trypanosoma cruzi} PDB: 2e6a_A* 2e6d_A* 2e68_A* 2djl_A*
2djx_A* 3c3n_A* 2b4g_A* 3c61_A* 3mhu_A* 3mjy_A*
Length = 314
Score = 27.5 bits (62), Expect = 5.1
Identities = 24/168 (14%), Positives = 45/168 (26%), Gaps = 44/168 (26%)
Query: 8 SPKVAGHGCFGVSLMLDPKFVGEAMSVIAANTNVPVSVKCRIGVDDHD--------SYNQ 59
P V G D + + + ++ +P VK D +
Sbjct: 132 CPNVPGKPQVAY----DFEAMRTYLQQVSLAYGLPFGVKMPPYFDIAHFDTAAAVLNEFP 187
Query: 60 LCDFIYKVSSLSPTRHFIIHSRKALLNGISPAENRTI------PPLK-------YEYYYA 106
L F+ V+S+ S ++ + + +Y
Sbjct: 188 LVKFVTCVNSVGNGLVIDAESESVVIK------PKQGFGGLGGKYILPTALANVNA-FYR 240
Query: 107 LLRDFPDLTFTLN----GGINTVDEVNAALRKGAHHVMVGRAA-YQNP 149
D GG+ + ++ + GA V VG A + P
Sbjct: 241 RCPDKL-------VFGCGGVYSGEDAFLHILAGASMVQVGTALQEEGP 281
>1q6o_A Humps, 3-keto-L-gulonate 6-phosphate decarboxylase, D-; beta
barrel, lyase; HET: LG6; 1.20A {Escherichia coli} SCOP:
c.1.2.3 PDB: 1kw1_A* 1q6l_A* 1kv8_A* 1q6q_A* 1q6r_A*
1xbv_A* 1so5_A* 1so4_A* 1xby_A* 1so3_A* 1so6_A* 1xbz_A*
1xbx_A*
Length = 216
Score = 27.3 bits (60), Expect = 5.8
Identities = 6/36 (16%), Positives = 14/36 (38%), Gaps = 1/36 (2%)
Query: 112 PDLTFTLNGGINTVDEVNAALRKGAHHVMVGRAAYQ 147
T+ GG+ ++++ H + GR+
Sbjct: 162 MGFKVTVTGGLA-LEDLPLFKGIPIHVFIAGRSIRD 196
>1jvn_A Glutamine, bifunctional histidine biosynthesis protein hishf;
substrate channeling, amidotransferase, TIM-barrel AS A
SUBS tunnel; HET: 143; 2.10A {Saccharomyces cerevisiae}
SCOP: c.1.2.1 c.23.16.1 PDB: 1ox4_B* 1ox5_A* 1ox6_A
1ox4_A
Length = 555
Score = 27.0 bits (60), Expect = 7.2
Identities = 11/45 (24%), Positives = 16/45 (35%), Gaps = 11/45 (24%)
Query: 116 FTLNGGINTVDEVNAA-----------LRKGAHHVMVGRAAYQNP 149
T+ GGI + +V+ R GA V +G A
Sbjct: 330 LTVGGGIKDIVDVDGTKIPALEVASLYFRSGADKVSIGTDAVYAA 374
>2gey_A ACLR protein; alpha+beta barrel, oxidoreductase; HET: PG4; 1.80A
{Streptomyces galilaeus} SCOP: d.17.4.9
Length = 158
Score = 26.4 bits (58), Expect = 7.7
Identities = 10/50 (20%), Positives = 17/50 (34%), Gaps = 1/50 (2%)
Query: 89 SPAENRTIPPLKYEYYYALLRDFPDLTFTLNGGINTVDEVNAALRKGAHH 138
S + + + L+ FPDL + + D V + A H
Sbjct: 37 SEDNEVSSADMV-KLMEGGLKAFPDLQLEVKSIMAEEDRVALRITVTATH 85
>3kp1_A D-ornithine aminomutase E component; 5 aminomutase (OAM), metal
binding protein; HET: PLP B12 5AD; 2.01A {Clostridium
sticklandii} PDB: 3kow_A* 3koy_A* 3koz_A* 3kp0_A*
3kox_A*
Length = 763
Score = 27.2 bits (60), Expect = 7.9
Identities = 14/40 (35%), Positives = 18/40 (45%), Gaps = 6/40 (15%)
Query: 125 VDEVNAALRKGAHHVMVGRAAYQNPWYTLGHVDTAIYGAP 164
+ + A GA H+MV R A Q+ H D I G P
Sbjct: 91 IRRMRMAAWHGADHIMVIRTAGQS------HYDGLIEGTP 124
>3r24_A NSP16, 2'-O-methyl transferase; methyltransferase, zinc-finger,
transferase, viral protein; HET: SAM; 2.00A {Sars
coronavirus}
Length = 344
Score = 27.0 bits (59), Expect = 8.4
Identities = 9/34 (26%), Positives = 16/34 (47%)
Query: 57 YNQLCDFIYKVSSLSPTRHFIIHSRKALLNGISP 90
Y QLC ++ ++ P +IH G++P
Sbjct: 93 YTQLCQYLNTLTLAVPYNMRVIHFGAGSDKGVAP 126
>2xyq_A Putative 2'-O-methyl transferase; transferase-viral protein
complex, rossman fold; HET: SAH; 2.00A {Sars
coronavirus} PDB: 2xyv_A* 2xyr_A*
Length = 290
Score = 26.6 bits (58), Expect = 8.6
Identities = 9/34 (26%), Positives = 16/34 (47%)
Query: 57 YNQLCDFIYKVSSLSPTRHFIIHSRKALLNGISP 90
Y QLC ++ ++ P +IH G++P
Sbjct: 47 YTQLCQYLNTLTLAVPYNMRVIHFGAGSDKGVAP 80
>2izz_A Pyrroline-5-carboxylate reductase 1; amino-acid biosynthesis, NADP,
oxidoreductase, proline biosy; HET: NAD; 1.95A {Homo
sapiens} PDB: 2ger_A 2gr9_A* 2gra_A*
Length = 322
Score = 26.5 bits (59), Expect = 9.4
Identities = 6/17 (35%), Positives = 8/17 (47%)
Query: 25 PKFVGEAMSVIAANTNV 41
P V E +V A T+
Sbjct: 147 PVVVREGATVYATGTHA 163
>3tri_A Pyrroline-5-carboxylate reductase; amino acid biosynthesis,
oxidoreductase; HET: NAP; 2.50A {Coxiella burnetii}
Length = 280
Score = 26.7 bits (60), Expect = 9.5
Identities = 5/17 (29%), Positives = 7/17 (41%)
Query: 25 PKFVGEAMSVIAANTNV 41
P V + + AN V
Sbjct: 124 PSSVRAGATGLFANETV 140
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
0.321 0.138 0.426
Gapped
Lambda K H
0.267 0.0830 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,577,509
Number of extensions: 279037
Number of successful extensions: 750
Number of sequences better than 10.0: 1
Number of HSP's gapped: 736
Number of HSP's successfully gapped: 63
Length of query: 282
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 190
Effective length of database: 4,133,061
Effective search space: 785281590
Effective search space used: 785281590
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: 57 (25.5 bits)