RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780625|ref|YP_003065038.1| formamidopyrimidine-DNA
glycosylase [Candidatus Liberibacter asiaticus str. psy62]
(289 letters)
>1ee8_A MUTM (FPG) protein; beta sandwich, zinc finger, helix two-turns
helix, riken structural genomics/proteomics initiative,
RSGI; 1.90A {Thermus thermophilus HB8} SCOP: a.156.1.2
b.113.1.1 g.39.1.8
Length = 266
Score = 270 bits (692), Expect = 2e-73
Identities = 104/290 (35%), Positives = 150/290 (51%), Gaps = 29/290 (10%)
Query: 2 PELPEVEIIRRNLMMVMKNMTVTDICLHRKNLRFDFPHHFSAATRGKKIIDVSRRAKYLL 61
PELPEVE RR L ++ T+ + R + +A G++I++V RR K+LL
Sbjct: 1 PELPEVETTRRRLRPLVLGQTLRQV-----VHRDPARYRNTALAEGRRILEVDRRGKFLL 55
Query: 62 IELEGNLSIIVHLGMSGSFIIEHTSCAKPIKNPQHNHVTISLTNNTNTKKYRVIYNDPRR 121
LEG + ++ HLGM+G F +E H + L T + ++DPRR
Sbjct: 56 FALEGGVELVAHLGMTGGFRLE---------PTPHTRAALVLEGRT------LYFHDPRR 100
Query: 122 FGFMDLVETSLKYQYPPLRTLGPEPADNSFNAIYLTHQFHKKNSNLKNALLNQKIVAGIG 181
FG + V + P L LGPEP +F + LK LL+Q++ AG+G
Sbjct: 101 FGRLFGVRRGDYREIPLLLRLGPEPLSEAFAFPGFFRGLKESARPLKALLLDQRLAAGVG 160
Query: 182 NIYVCEALWRAKLSPIRKTRSLIQNNGTPKDILYKLIQEIQKVLIDAIDAGGSSLRD--Y 239
NIY EAL+RA+LSP R RSL ++ +L + +++VL +A++ GGS+L D Y
Sbjct: 161 NIYADEALFRARLSPFRPARSL------TEEEARRLYRALREVLAEAVELGGSTLSDQSY 214
Query: 240 VHIDGSIGYFQNAFSVYGKTGEPCLSNCGQMIRRIVQAGRSTFYCTYCQK 289
DG G FQ +VYG+ G PC CG+ + R V AGR T +C CQ
Sbjct: 215 RQPDGLPGGFQTRHAVYGREGLPCP-ACGRPVERRVVAGRGTHFCPTCQG 263
>1k82_A Formamidopyrimidine-DNA glycosylase; protein-DNA complex, DNA
repair, beta sandwich, zinc finger, helix two-turns
helix, hydrolase/DNA complex; HET: PED; 2.10A
{Escherichia coli} SCOP: a.156.1.2 b.113.1.1 g.39.1.8
Length = 268
Score = 231 bits (590), Expect = 1e-61
Identities = 104/288 (36%), Positives = 145/288 (50%), Gaps = 20/288 (6%)
Query: 2 PELPEVEIIRRNLMMVMKNMTVTDICLHRKNLRFDFPHHFSAATRGKKIIDVSRRAKYLL 61
PELPEVE RR + + T+ + LR+ + ++ V RRAKYLL
Sbjct: 1 PELPEVETSRRGIEPHLVGATILHAVVRNGRLRWPVSEEI-YRLSDQPVLSVQRRAKYLL 59
Query: 62 IELEGNLSIIVHLGMSGSFIIEHTSCAKPIKNPQHNHVTISLTNNTNTKKYRVIYNDPRR 121
+EL II+HLGMSGS I +H+HV + ++N + Y DPRR
Sbjct: 60 LELPEG-WIIIHLGMSGSLRILPEEL----PPEKHDHVDLVMSNGK-----VLRYTDPRR 109
Query: 122 FGFMDLVETSLKYQYPPLRTLGPEPADNSFNAIYLTHQFHKKNSNLKNALLNQKIVAGIG 181
FG + + L LGPEP + FN YL + KK + +K L++ K+V G+G
Sbjct: 110 FGAWLWTKE--LEGHNVLTHLGPEPLSDDFNGEYLHQKCAKKKTAIKPWLMDNKLVVGVG 167
Query: 182 NIYVCEALWRAKLSPIRKTRSLIQNNGTPKDILYKLIQEIQKVLIDAIDAGGSSLRDYVH 241
NIY E+L+ A + P R SL L + I+ VL+ +I+ GG++L+D++
Sbjct: 168 NIYASESLFAAGIHPDRLASSL------SLAECELLARVIKAVLLRSIEQGGTTLKDFLQ 221
Query: 242 IDGSIGYFQNAFSVYGKTGEPCLSNCGQMIRRIVQAGRSTFYCTYCQK 289
DG GYF VYG+ GEPC CG I A R+TFYC CQK
Sbjct: 222 SDGKPGYFAQELQVYGRKGEPCR-VCGTPIVATKHAQRATFYCRQCQK 268
>1tdh_A NEI endonuclease VIII-like 1; helix two turns helix, zinc-LESS
finger, hydrolase; 2.10A {Homo sapiens} SCOP: a.156.1.2
b.113.1.1 g.39.1.8
Length = 364
Score = 193 bits (490), Expect = 5e-50
Identities = 61/313 (19%), Positives = 97/313 (30%), Gaps = 50/313 (15%)
Query: 1 MPELPEVEIIRRNLMMVMKNMTVTDICLHRKNLRFDFPHHFSAATRGKKIIDVSRRAKYL 60
MPE PE+ + + + + + R I S R K L
Sbjct: 1 MPEGPELHLASQFVNEACRALVFGGCVEKSSVSRNPEVPF----ESSAYRISASARGKEL 56
Query: 61 LIELEG---------NLSIIVHLGMSGSFIIEHTSCAKPIKNPQHNHVTISLTNNTNTKK 111
+ L L+++ GMSGSF + P+H H+
Sbjct: 57 RLILSPLPGAQPQQEPLALVFRFGMSGSFQLVPREEL-----PRHAHLRFYTAPPGPRLA 111
Query: 112 YRVIYNDPRRFGFMDLVETSLKYQYPPLRTLGPEPADNSFNAIYLTHQFHK-KNSNLKNA 170
+ D RRFG DL + P F L + K + + A
Sbjct: 112 LC--FVDIRRFGRWDLGGKWQPGRGPC-----VLQEYQQFRESVLRNLADKAFDRPICEA 164
Query: 171 LLNQKIVAGIGNIYVCEALWRAKLSPIRKTRSLIQ--------------NNGTPKDILYK 216
LL+Q+ GIGN E L+R K+ P K RS+++ K
Sbjct: 165 LLDQRFFNGIGNYLRAEILYRLKIPPFEKARSVLEALQQHRPSPELTLSQKIRTKLQNPD 224
Query: 217 LIQEIQKVLIDAIDAGGSSLRDYVHIDGSIGYFQNAFSVYGKTGEPCLSNCGQMIRRIVQ 276
L++ V + + GG + F+ YG G L + +
Sbjct: 225 LLELCHSVPKEVVQLGGRGYGSESGEEDF-AAFRAWLRCYGMPGMSSLQD---------R 274
Query: 277 AGRSTFYCTYCQK 289
GR+ ++
Sbjct: 275 HGRTIWFQGDPGP 287
>1k3x_A Endonuclease VIII; hydrolase/DNA; HET: BRU PED; 1.25A {Escherichia
coli} SCOP: a.156.1.2 b.113.1.1 g.39.1.8 PDB: 1k3w_A*
1q39_A 2ea0_A* 2oq4_A* 1q3c_A 2opf_A* 1q3b_A*
Length = 262
Score = 189 bits (481), Expect = 5e-49
Identities = 58/290 (20%), Positives = 107/290 (36%), Gaps = 32/290 (11%)
Query: 2 PELPEVEIIRRNLMMVMKNMTVTDICLHRKNLRFDFPHHFSAATRGKKIIDVSRRAKYLL 61
PE PE+ NL +K +TD+ L+ + + G+ + V R K LL
Sbjct: 1 PEGPEIRRAADNLEAAIKGKPLTDVWFAFPQLKT-----YQSQLIGQHVTHVETRGKALL 55
Query: 62 IELEGNLSIIVHLGMSGSFIIEHTSCAKPIKNPQHNHVTISLTNNTNTKKYRVIYNDPRR 121
+L++ H + G + + T + + V + + T
Sbjct: 56 THFSNDLTLYSHNQLYGVWRVVDTGE--EPQTTRVLRVKLQTADKTI---------LLYS 104
Query: 122 FGFMDLVETSLKYQYPPLRTLGPEPADNSFNAIYLTHQFHK---KNSNLKNALLNQKIVA 178
++++ +P L+ +GP+ D + + + +N LL+Q +A
Sbjct: 105 ASDIEMLRPEQLTTHPFLQRVGPDVLDPNLTPEVVKERLLSPRFRNRQFAGLLLDQAFLA 164
Query: 179 GIGNIYVCEALWRAKLSPIRKTRSLIQNNGTPKDILYKLIQEIQKVLIDAIDAGGSSLRD 238
G+GN E LW+ L+ K + L L + ++ + G +
Sbjct: 165 GLGNYLRVEILWQVGLTGNHKAKDLNAAQL------DALAHALLEIPRFSYATRGQVDEN 218
Query: 239 YVHIDGSIGYFQNAFSVYGKTGEPCLSNCGQMIRRIVQAGRSTFYCTYCQ 288
H G F V+ + GEPC CG +I + + R ++C CQ
Sbjct: 219 KHH-----GALFR-FKVFHRDGEPCE-RCGSIIEKTTLSSRPFYWCPGCQ 261
>3a46_A Formamidopyrimidine-DNA glycosylase; helix two turns helix,
zinc-LESS finger, hydrolase, THF, glycosidase, lyase,
multifunctional enzyme; HET: DNA 3DR; 2.20A
{Acanthamoeba polyphaga mimivirus} PDB: 3a45_A* 3a42_A
Length = 289
Score = 180 bits (458), Expect = 3e-46
Identities = 62/304 (20%), Positives = 102/304 (33%), Gaps = 32/304 (10%)
Query: 1 MPELPEVEIIRRNLMMVMKNMTVTDICLHRKNLRFDFPHHFSAATRGK--KIIDVSRRAK 58
MPE PEV + L K T+ I P + K+ +V + K
Sbjct: 1 MPEGPEVALTADILEKYFKGKTLEYIDFISGRYSKSEPEGYDDFIANLPLKVSNVDTKGK 60
Query: 59 YLLIELEGNLSIIVHLGMSGSFIIEHTSCAKPIKNPQHNHVTISLTNNTNTKKYRVIYND 118
+L EL + +F + + ++ +S N ++D
Sbjct: 61 FLWFELFDPNDKSNKWYIWNTFGLTGM---WSLFEAKYTRAVLSFDNEL-----MAYFSD 112
Query: 119 PRRFGFMDLVETSLKYQYPPLRTLGPEPADNSFNAIYLTHQFHKKNSNLKNALLNQKIVA 178
R FG + K L LGP+ N I ++ + + + +KI +
Sbjct: 113 MRNFGTFKFSNSE-KELKRKLNELGPDFLKNDDIDISKIKKYKQP--IVALLMDQKKIGS 169
Query: 179 GIGNIYVCEALWRAKLSPIRKTRSLIQNNGTPKDILYKLIQEIQKVLIDAIDAGG----S 234
G+GN V E L+RAK+ P + +L + L I+ A D+
Sbjct: 170 GLGNYLVAEILYRAKIDPHKLGSNL------TDQEIENLWYWIKYETKLAYDSNHIGYMV 223
Query: 235 SLRDYVHIDGSIGYFQNA--------FSVYGKTGEPCL-SNCGQMIRRIVQAGRSTFYCT 285
+L + G Y N F VY K +P I + R+T++
Sbjct: 224 NLENESSKIGRKNYHPNIHPTEKEFDFLVYRKKKDPNGNKVIADKIIGSGKNKRTTYWAP 283
Query: 286 YCQK 289
QK
Sbjct: 284 AIQK 287
>1tdz_A Formamidopyrimidine-DNA glycosylase; DNA repair, FPG, MUTM, FAPY G,
hydrolase/DNA complex; HET: FOX; 1.80A {Lactococcus
lactis} SCOP: a.156.1.2 b.113.1.1 g.39.1.8 PDB: 1pji_A*
1pm5_A* 1xc8_A* 3c58_A* 1nnj_A 1kfv_A 1pjj_A*
Length = 272
Score = 163 bits (412), Expect = 5e-41
Identities = 98/289 (33%), Positives = 137/289 (47%), Gaps = 18/289 (6%)
Query: 1 MPELPEVEIIRRNLMMVMKNMTVTDICLHRKNLRFDFPHHFSAATRGKKIIDVSRRAKYL 60
MPELPEVE +RR L + + I + GK I +SRR KYL
Sbjct: 1 MPELPEVETVRRELEKRIVGQKIISIEATYPRMVLTGFEQLKKELTGKTIQGISRRGKYL 60
Query: 61 LIELEGNLSIIVHLGMSGSFIIEHTSCAKPIKNPQHNHVTISLTNNTNTKKYRVIYNDPR 120
+ E+ + +I HL M G + + + + ++IY D R
Sbjct: 61 IFEIGDDFRLISHLRMEGKYRLATLDAPREKHDHLTMK----------FADGQLIYADVR 110
Query: 121 RFGFMDLVETSLKYQYPPLRTLGPEPADNSFNAIYLTHQFHKKNSNLKNALLNQKIVAGI 180
+FG +L+ T Y + +GPEP F+ + K +K LL Q +VAG+
Sbjct: 111 KFGTWELISTDQVLPYFLKKKIGPEPTYEDFDEKLFREKLRKSTKKIKPYLLEQTLVAGL 170
Query: 181 GNIYVCEALWRAKLSPIRKTRSLIQNNGTPKDILYKLIQEIQKVLIDAIDAGGSSLRDYV 240
GNIYV E LW AK+ P ++T LI+++ + L I ++L AI GGSS+R Y
Sbjct: 171 GNIYVDEVLWLAKIHPEKETNQLIESSI------HLLHDSIIEILQKAIKLGGSSIRTY- 223
Query: 241 HIDGSIGYFQNAFSVYGKTGEPCLSNCGQMIRRIVQAGRSTFYCTYCQK 289
GS G QN VYGKTGE C CG I++I AGR T +C CQ+
Sbjct: 224 SALGSTGKMQNELQVYGKTGEKCS-RCGAEIQKIKVAGRGTHFCPVCQQ 271
>3gpu_A DNA glycosylase; DNA glycosylase, DNA repair, damage search, base
extrusion; HET: DNA 8OG; 1.62A {Geobacillus
stearothermophilus} PDB: 3gpx_A* 3gq3_A* 2f5n_A 2f5o_A
2f5p_A 3gp1_A* 3gq4_A* 3gpy_A* 3gq5_A* 3gpp_A* 2f5q_A*
2f5s_A* 1l1z_A* 1l1t_A* 1l2b_A* 1l2c_A* 1l2d_A* 1r2z_A*
1r2y_A* 3jr5_A* ...
Length = 256
Score = 136 bits (342), Expect = 7e-33
Identities = 90/290 (31%), Positives = 132/290 (45%), Gaps = 36/290 (12%)
Query: 2 PELPEVEIIRRNLMMVMKNMTVTDICLHRKNL--RFDFPHHFSAATRGKKIIDVSRRAKY 59
PELPEVE IRR L+ ++ T+ D+ + N+ F+A G+ + + RR K+
Sbjct: 1 PELPEVETIRRTLLPLIVGKTIEDVRIFWPNIIRHPRDSEAFAARMIGQTVRGLERRGKF 60
Query: 60 LLIELEGNLSIIVHLGMSGSFIIEHTSCAKPIKNPQHNHVTISLTNNTNTKKYRVIYNDP 119
L L ++I HL M G + + H HV T+ + + Y D
Sbjct: 61 LKF-LLDRDALISHLRMEGRYAVASALE----PLEPHTHVVFCFTDGS-----ELRYRDV 110
Query: 120 RRFGFMDLVETSLKYQYPPLRTLGPEPADNSFNAIYLTHQFHKKNSNLKNALLNQKIVAG 179
R+FG M + + PPL LGPEP +F+ L + K ++K LL+ +VAG
Sbjct: 111 RKFGTMHVYAKEEADRRPPLAELGPEPLSPAFSPAVLAERAVKTKRSVKALLLDCTVVAG 170
Query: 180 IGNIYVCEALWRAKLSPIRKTRSLIQNNGTPKDILYKLIQEIQKVLIDAIDAGGSSLRDY 239
GNIYV E+L+RA + P R SL +L +E+ + +A+ G
Sbjct: 171 FGNIYVDESLFRAGILPGRPAASLSSKEI------ERLHEEMVATIGEAVMKG------- 217
Query: 240 VHIDGSIGYFQNAFSVYGKTGEPCLSNCGQMIRRIVQAGRSTFYCTYCQK 289
Q+ VYG+ G PC CG I + V AGR T YC CQ+
Sbjct: 218 ----------QHHLYVYGRQGNPCK-RCGTPIEKTVVAGRGTHYCPRCQR 256
>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 = 53.4 bits (128), Expect = 6e-08
Identities = 47/259 (18%), Positives = 77/259 (29%), Gaps = 104/259 (40%)
Query: 65 EGN----LSIIVHLGMSGSFIIEHTSCAKPIK--N---PQHNHVTISLTNNTNTKKYRVI 115
EG LSI ++ + ++ + N P V ISL N
Sbjct: 332 EGVPSPMLSIS---NLTQEQVQDY------VNKTNSHLPAGKQVEISLVNG--------- 373
Query: 116 YNDPRRFGFMDLVETSLKYQYPP---------LRTLG-PEPADNS---FN--AIYLTHQ- 159
+ V + PP LR P D S F+ + +++
Sbjct: 374 ---AKNL-----VVSG-----PPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRF 420
Query: 160 ------FHKKNSNLKNALLNQKIVAGIGNIYVCEALWRAK-LS-PIRKTRSLIQNNGTPK 211
FH + L A + I + V + AK + P+ T +G
Sbjct: 421 LPVASPFH--SHLLVPA--SDLINKDLVKNNVS---FNAKDIQIPVYDTF-----DG--S 466
Query: 212 DILYKLIQEIQKVLIDAIDAGGSSLRDYVHIDGSIGYFQNA--FS-----VYGKTGEPCL 264
D L L I + ++D I +R V ++ F +G G L
Sbjct: 467 D-LRVLSGSISERIVDCI------IRLPVK-------WETTTQFKATHILDFGPGGASGL 512
Query: 265 SNCGQMIR-----RIVQAG 278
+ R++ AG
Sbjct: 513 GVLTHRNKDGTGVRVIVAG 531
>1zj8_A Probable ferredoxin-dependent nitrite reductase NIRA; sulfite,
siroheme, Fe4-S4, Cys- Tyr covalent bond; HET: SRM;
2.80A {Mycobacterium tuberculosis H37RV} SCOP: d.58.36.1
d.58.36.1 d.134.1.1 d.134.1.1 PDB: 1zj9_A*
Length = 566
Score = 33.6 bits (76), Expect = 0.053
Identities = 6/38 (15%), Positives = 16/38 (42%)
Query: 200 TRSLIQNNGTPKDILYKLIQEIQKVLIDAIDAGGSSLR 237
R +Q + + + ++ + + V + +A G R
Sbjct: 140 DRQNVQYHWIEVENVPEIWRRLDDVGLQTTEACGDCPR 177
>1aop_A Sirhp, sulfite reductase hemoprotein; oxidoreductase, siroheme,
[4Fe-4S], snirr, six-electron reduction, phosphate
complex; HET: SRM; 1.60A {Escherichia coli} SCOP:
d.58.36.1 d.58.36.1 d.134.1.1 d.134.1.1 PDB: 2aop_A*
2gep_A* 3aop_A* 3geo_A* 4aop_A* 4gep_A* 5aop_A* 5gep_A*
6gep_A* 7gep_A* 8gep_A*
Length = 497
Score = 32.1 bits (72), Expect = 0.14
Identities = 9/38 (23%), Positives = 15/38 (39%)
Query: 200 TRSLIQNNGTPKDILYKLIQEIQKVLIDAIDAGGSSLR 237
R Q +G K + + Q + V +DA+ R
Sbjct: 43 NRQTFQFHGILKKNVKPVHQMLHSVGLDALATANDMNR 80
>2akj_A Ferredoxin--nitrite reductase, chloroplast; X-RAY crystallography,
heme, electron transport, oxidoreductase; HET: SRM;
2.80A {Spinacia oleracea} SCOP: d.58.36.1 d.58.36.1
d.134.1.1 d.134.1.1
Length = 608
Score = 31.7 bits (71), Expect = 0.20
Identities = 8/38 (21%), Positives = 20/38 (52%)
Query: 200 TRSLIQNNGTPKDILYKLIQEIQKVLIDAIDAGGSSLR 237
TR Q G + ++I+ ++ V + ++ +G ++R
Sbjct: 188 TRQNWQIRGVVLPDVPEIIKGLESVGLTSLQSGMDNVR 225
>3i4k_A Muconate lactonizing enzyme; structural genomics, NYSGXRC, target
9450D, isomerase, PSI-2, protein structure initiative;
2.20A {Corynebacterium glutamicum}
Length = 383
Score = 30.4 bits (67), Expect = 0.51
Identities = 8/50 (16%), Positives = 18/50 (36%), Gaps = 8/50 (16%)
Query: 16 MVMKNMTVTDICLHRKNLRFDFPHHFSAATRGKKIIDVSRRAKYLLIELE 65
M + ++T+ + ++ PH F+ T LL+ +
Sbjct: 1 MSLSDLTIQKVESRILDVPLIRPHGFATTTS--------TEQHILLVSVH 42
>1z7e_A Protein aRNA; rossmann fold, OB-like fold, hydrolase; HET: ATP UGA;
3.00A {Escherichia coli} SCOP: b.46.1.1 c.2.1.2 c.65.1.1
Length = 660
Score = 28.4 bits (63), Expect = 1.8
Identities = 31/220 (14%), Positives = 62/220 (28%), Gaps = 21/220 (9%)
Query: 25 DICLHRKNLRFDFPH-----HFSAATRGKKIIDVSRRAKYLLIELEGNLSIIVHLGMSGS 79
DI +H + + + A + + ++ E NL II +
Sbjct: 368 DISIHSEWIEYHVKKCDVVLPLVAIATPIEYTR--NPLRVFELDFEENLRIIRYCVKYRK 425
Query: 80 -FIIEHTSCAKPIKNPQHNHVTISLTNNTNTKKYRVIYNDPRRFGFMDL--VETSLKYQY 136
I TS + + ++ S K R IY+ ++ + Q+
Sbjct: 426 RIIFPSTSEVYGMCSDKYFDEDHSNLIVGPVNKPRWIYSVSKQLLDRVIWAYGEKEGLQF 485
Query: 137 PPLRTLGPEPADNSFNAIYLTHQFHKKNSNLKNALLNQKI-VAGIGN-----IYV---CE 187
R + N + I + G + E
Sbjct: 486 TLFRPFNWMGPRLDNLNAARIGSSRAITQLILNLVEGSPIKLIDGGKQKRCFTDIRDGIE 545
Query: 188 ALWRAKLSPIRKTRSLIQNNGTPKDI--LYKLIQEIQKVL 225
AL+R + + I N G P++ + +L + +
Sbjct: 546 ALYRIIENAGNRCDGEIINIGNPENEASIEELGEMLLASF 585
>2ps2_A Putative mandelate racemase/muconate lactonizing enzyme;
structural genomics, NYSGXRC, target 9440A, enolase
superfamily, PSI-2; 1.80A {Aspergillus oryzae RIB40}
Length = 371
Score = 27.9 bits (60), Expect = 2.5
Identities = 6/48 (12%), Positives = 20/48 (41%), Gaps = 6/48 (12%)
Query: 18 MKNMTVTDICLHRKNLRFDFPHHFSAATRGKKIIDVSRRAKYLLIELE 65
M ++ + I + + +L + ++ +A R + D ++ +
Sbjct: 1 MSDLKIARIDVFQVDLPYSGGVYYLSAGREYRSFDA------TIVRIT 42
>1gvf_A Tagatose-bisphosphate aldolase AGAY; lyase, zinc.; HET: PGH; 1.45A
{Escherichia coli} SCOP: c.1.10.2
Length = 286
Score = 28.1 bits (62), Expect = 2.5
Identities = 13/101 (12%), Positives = 37/101 (36%), Gaps = 1/101 (0%)
Query: 135 QYPPLRTLGPEPADNSFNAIYLTHQFHKKNSNLKNALLNQKIVAGIGNIYVCEALWRAKL 194
Y + + + + H S++ + + + I G+ + V L A
Sbjct: 182 LYSKTPKIDFQRLAEIREVVDVPLVLHG-ASDVPDEFVRRTIELGVTKVNVATELKIAFA 240
Query: 195 SPIRKTRSLIQNNGTPKDILYKLIQEIQKVLIDAIDAGGSS 235
++ + P+ + + +++V+ + I+ GS+
Sbjct: 241 GAVKAWFAENPQGNDPRYYMRVGMDAMKEVVRNKINVCGSA 281
>1rvg_A Fructose-1,6-bisphosphate aldolase; class II aldolase,
metal-depdendent aldolase, lyase; 2.00A {Thermus
aquaticus} SCOP: c.1.10.2 PDB: 1rv8_A 2fjk_A*
Length = 305
Score = 27.4 bits (60), Expect = 3.7
Identities = 19/119 (15%), Positives = 37/119 (31%), Gaps = 1/119 (0%)
Query: 118 DPRRFGFMDLVETSLKYQYPPLRTLGPEPADNSFNAIYLTHQFHKKN-SNLKNALLNQKI 176
R F +E + PL G + + + + + I
Sbjct: 184 KGRPFIDHARLERIARLVPAPLVLHGASAVPPELVERFRASGGEIGEAAGIHPEDIKKAI 243
Query: 177 VAGIGNIYVCEALWRAKLSPIRKTRSLIQNNGTPKDILYKLIQEIQKVLIDAIDAGGSS 235
GI I L A + IR+ + P+ L + +++V+ ++ GS
Sbjct: 244 SLGIAKINTDTDLRLAFTALIREALNKNPKEFDPRKYLGPAREAVKEVVKSRMELFGSV 302
>1mdl_A Mandelate racemase; isomerase, mandelate pathway, magnesium; HET:
RMN SMN; 1.85A {Pseudomonas aeruginosa} SCOP: c.1.11.2
d.54.1.1 PDB: 1mdr_A* 1dtn_A* 1mra_A* 2mnr_A 1mns_A
Length = 359
Score = 26.4 bits (57), Expect = 6.8
Identities = 10/48 (20%), Positives = 18/48 (37%), Gaps = 8/48 (16%)
Query: 18 MKNMTVTDICLHRKNLRFDFPHHFSAATRGKKIIDVSRRAKYLLIELE 65
M + +T + N+ +P H + T A +LI+L
Sbjct: 1 MSEVLITGLRTRAVNVPLAYPVHTAVGTV--------GTAPLVLIDLA 40
>3cxl_A N-chimerin; SH2, RHO-GAP, structural genomics consortium, SGC,
alternative splicing, GTPase activation, metal-binding,
phorbol-ester binding; 2.60A {Homo sapiens} PDB: 1xa6_A
Length = 463
Score = 26.6 bits (58), Expect = 7.8
Identities = 15/68 (22%), Positives = 26/68 (38%), Gaps = 7/68 (10%)
Query: 100 TISLTNNTNTKKYRVIYN-----DPRRF-GFMDLVETSLKYQYPPLRTLGPEPADNSFNA 153
T++L + T+ +R+ Y+ +RF DLV L Y + + N
Sbjct: 87 TLALRFGSQTRNFRLYYDGKHFVGEKRFESIHDLVTDGLITLYIETKAAEYIAK-MTINP 145
Query: 154 IYLTHQFH 161
IY +
Sbjct: 146 IYEHVGYT 153
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
0.323 0.138 0.413
Gapped
Lambda K H
0.267 0.0422 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 2,577,048
Number of extensions: 120601
Number of successful extensions: 399
Number of sequences better than 10.0: 1
Number of HSP's gapped: 367
Number of HSP's successfully gapped: 23
Length of query: 289
Length of database: 5,693,230
Length adjustment: 92
Effective length of query: 197
Effective length of database: 3,462,782
Effective search space: 682168054
Effective search space used: 682168054
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 (21.9 bits)
S2: 56 (26.1 bits)