RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780957|ref|YP_003065370.1| dihydrofolate reductase
protein [Candidatus Liberibacter asiaticus str. psy62]
(176 letters)
>3hj3_A Chain A, crystal structure of DHFR; TS, enzyme, crossover,
non-active site, oxidoreductase; HET: UMP CB3 MTX NDP;
2.70A {Cryptosporidium hominis} PDB: 1qzf_A* 1sej_A*
3dl5_A* 3dl6_A* 2oip_A*
Length = 521
Score = 182 bits (463), Expect = 4e-47
Identities = 49/182 (26%), Positives = 87/182 (47%), Gaps = 18/182 (9%)
Query: 1 MTRPEI-ILIAAITRNNVIGSCGGMPWKISSDLKRFKSLTTG-------NPVVMGYRTFQ 52
M+ + I++AA ++ IG G +PW IS DLK F +T N ++MG +T+
Sbjct: 1 MSEKNVSIVVAASVLSSGIGINGQLPWSISEDLKFFSKITNNKCDSNKKNALIMGRKTWD 60
Query: 53 SIG-RLLPGRTNIIITRDNTRRASVNPEAVLASSILDSLD-LASKTGSKKIFIIGGGEIY 110
SIG R L R ++I+ + + +P V+ ++ DS++ L + + IF+ GG IY
Sbjct: 61 SIGRRPLKNRIIVVISS-SLPQDEADPNVVVFRNLEDSIENLMNDDSIENIFVCGGESIY 119
Query: 111 AQTIS--LAHTLYITHIEKE-IEGDVFFPSIDSNIWKKQEKEIITSAGEGDDYPTRFVIY 167
+ +Y+T + E IE D +FP I + + + F+I+
Sbjct: 120 RDALKDNFVDRIYLTRVALEDIEFDTYFPEIPETFLPVYMSQTFCT----KNISYDFMIF 175
Query: 168 DR 169
++
Sbjct: 176 EK 177
>3dl5_A Dihydrofolate reductase, DHFR; enzyme active site mutant,
enzyme-ligand complex, , oxidoreductase; HET: UMP CB3
DHF NDP; 2.74A {Cryptosporidium hominis} PDB: 3dl6_A*
1qzf_A* 1sej_A* 2oip_A*
Length = 521
Score = 171 bits (434), Expect = 9e-44
Identities = 49/182 (26%), Positives = 87/182 (47%), Gaps = 18/182 (9%)
Query: 1 MTRPEI-ILIAAITRNNVIGSCGGMPWKISSDLKRFKSLTTG-------NPVVMGYRTFQ 52
M+ + I++AA ++ IG G +PW IS DLK F +T N ++MG +T+
Sbjct: 1 MSEKNVSIVVAASVLSSGIGINGQLPWSISEDLKFFSKITNNKCDSNKKNALIMGRKTWD 60
Query: 53 SIG-RLLPGRTNIIITRDNTRRASVNPEAVLASSILDSLD-LASKTGSKKIFIIGGGEIY 110
SIG R L R ++I+ + + +P V+ ++ DS++ L + + IF+ GG IY
Sbjct: 61 SIGRRPLKNRIIVVISS-SLPQDEADPNVVVFRNLEDSIENLMNDDSIENIFVCGGESIY 119
Query: 111 AQTIS--LAHTLYITHIEKE-IEGDVFFPSIDSNIWKKQEKEIITSAGEGDDYPTRFVIY 167
+ +Y+T + E IE D +FP I + + + F+I+
Sbjct: 120 RDALKDNFVDRIYLTRVALEDIEFDTYFPEIPETFLPVYMSQTFCT----KNISYDFMIF 175
Query: 168 DR 169
++
Sbjct: 176 EK 177
>3nrr_A Dihydrofolate reductase-thymidylate synthase; structural genomics,
seattle structural genomics center for infectious
disease, ssgcid, niaid, DHFR; HET: NAP D16 UMP; 1.80A
{Babesia bovis} PDB: 3kjr_A* 3i3r_A* 3k2h_A*
Length = 515
Score = 166 bits (422), Expect = 2e-42
Identities = 50/193 (25%), Positives = 83/193 (43%), Gaps = 31/193 (16%)
Query: 4 PEIILIAAITRNNVIGSCGGMPW-KISSDLKRFKSLTTGNP-------------VVMGYR 49
++ + A+ N VIG +PW I+ D + ++ TT P V+ G +
Sbjct: 13 GDLTIFVAVALNKVIGHKNQIPWPHITHDFRFLRNGTTYIPPEVLSKNPDIQNVVIFGRK 72
Query: 50 TFQSIGRL---LPGRTNIIITRDNTRRASVNPEAVLASSILDSL-DLASKTGSKKIFIIG 105
T++SI + L R N+I++R P ++ + ++ DL + KIFI+G
Sbjct: 73 TYESIPKASLPLKNRINVILSRT----VKEVPGCLVYEDLSTAIRDLRANVPHNKIFILG 128
Query: 106 GGEIYAQTIS--LAHTLYITHIEKEIEGDVFFPSIDSNIWKKQEKEIITSAGEGDDYPTR 163
G +Y + + L +Y+T + KE GD +FP I D
Sbjct: 129 GSFLYKEVLDNGLCDKIYLTRLNKEYPGDTYFPDIPDTFEITAISP----TFSTDFVSYD 184
Query: 164 FVIYDRFLSKNCS 176
FVIY+R K+C
Sbjct: 185 FVIYER---KDCK 194
>3jwk_A Dihydrofolate reductase; oxidoreductase; HET: NAP 5WB; 2.08A
{Bacillus anthracis} PDB: 3jw5_A* 3jwf_A* 3jwc_A*
3jvx_A* 3jwm_A* 3jw3_A* 3e0b_A* 3dat_A* 2qk8_A* 3fl8_A*
3fl9_A* 2kgk_A*
Length = 168
Score = 165 bits (419), Expect = 5e-42
Identities = 54/165 (32%), Positives = 87/165 (52%), Gaps = 6/165 (3%)
Query: 5 EIILIAAITRNNVIGSCGGMPWKISSDLKRFKSLTTGNPVVMGYRTFQSIGRLLPGRTNI 64
+ + A+ N VIG +PW++ S+L+ K T G+P++MG + +++IGR LPGR NI
Sbjct: 8 RVSFMVAMDENRVIGKDNNLPWRLPSELQYVKKTTMGHPLIMGRKNYEAIGRPLPGRRNI 67
Query: 65 IITRDNTRRASVNPEAVLASSILDSLDLASKTGSKKIFIIGGGEIYAQTISLAHTLYITH 124
I+TR+ +A S+ + +L ++IFI GG +I+ + LYIT
Sbjct: 68 IVTRNEGYHV---EGCEVAHSVEEVFELCKN--EEEIFIFGGAQIFDLFLPYVDKLYITK 122
Query: 125 IEKEIEGDVFFPSIDSNIWKKQEKEIITSAGEGDDYPTRFVIYDR 169
I EGD FFP +D WK+ E E + Y + +Y++
Sbjct: 123 IHHAFEGDTFFPEMDMTNWKEVFVEKGL-TDEKNPYTYYYHVYEK 166
>3e0b_A Dihydrofolate reductase; oxidoreductase; HET: NAP N22; 2.25A
{Bacillus anthracis} PDB: 3dat_A* 2qk8_A* 3fl8_A*
3fl9_A* 2kgk_A*
Length = 166
Score = 163 bits (413), Expect = 2e-41
Identities = 55/165 (33%), Positives = 87/165 (52%), Gaps = 6/165 (3%)
Query: 5 EIILIAAITRNNVIGSCGGMPWKISSDLKRFKSLTTGNPVVMGYRTFQSIGRLLPGRTNI 64
+ + A+ N VIG +PW++ S+L+ K T G+P++MG + +++IGR LPGR NI
Sbjct: 6 RVSFMVAMDENRVIGKDNNLPWRLPSELQYVKKTTMGHPLIMGRKNYEAIGRPLPGRRNI 65
Query: 65 IITRDNTRRASVNPEAVLASSILDSLDLASKTGSKKIFIIGGGEIYAQTISLAHTLYITH 124
I+TR+ +A S+ + +L ++IFI GG +IY + LYIT
Sbjct: 66 IVTRNEG---YHVEGCEVAHSVEEVFELCKN--EEEIFIFGGAQIYDLFLPYVDKLYITK 120
Query: 125 IEKEIEGDVFFPSIDSNIWKKQEKEIITSAGEGDDYPTRFVIYDR 169
I EGD FFP +D WK+ E E + Y + +Y++
Sbjct: 121 IHHAFEGDTFFPEMDMTNWKEVFVEKGL-TDEKNPYTYYYHVYEK 164
>3jsu_A Dihydrofolate reductase-thymidylate synthase; rossmann fold,
oxidoreductase, transferase; HET: KA5 NDP UMP; 2.70A
{Plasmodium falciparum}
Length = 608
Score = 162 bits (411), Expect = 4e-41
Identities = 48/196 (24%), Positives = 82/196 (41%), Gaps = 45/196 (22%)
Query: 15 NNVIGSCGGMPWK-ISSDLKRFKSLTT--------------------------------- 40
+G+ G +PWK IS D+K F+++TT
Sbjct: 37 FRGLGNKGVLPWKCISLDMKYFRAVTTYVNESKYEKLKYKRCKYLNKETVDNVNDMPNSK 96
Query: 41 --GNPVVMGYRTFQSIG---RLLPGRTNIIITRDNTRRASVNPEAVLASSILDSLDLASK 95
N VVMG ++SI + L R N+I++R ++ + + + + + D + L K
Sbjct: 97 KLQNVVVMGRTNWESIPKKFKPLSNRINVILSR-TLKKEDFDEDVYIINKVEDLIVLLGK 155
Query: 96 TGSKKIFIIGGGEIYAQTIS--LAHTLYITHIEKEIEGDVFFPSIDSNIWKKQEKEIITS 153
K FI+GG +Y + + L +Y T I E DVFFP I+ N ++ +
Sbjct: 156 LNYYKCFILGGSVVYQEFLEKKLIKKIYFTRINSTYECDVFFPEINENEYQIISVSDVY- 214
Query: 154 AGEGDDYPTRFVIYDR 169
++ F+IY +
Sbjct: 215 --TSNNTTLDFIIYKK 228
>3ia4_A Dihydrofolate reductase; NADPH, methotrexate, oxidoreductase; HET:
NDP MTX; 1.70A {Moritella profunda} PDB: 3ia5_A
Length = 162
Score = 160 bits (407), Expect = 1e-40
Identities = 63/164 (38%), Positives = 95/164 (57%), Gaps = 6/164 (3%)
Query: 6 IILIAAITRNNVIGSCGGMPWKISSDLKRFKSLTTGNPVVMGYRTFQSIGRLLPGRTNII 65
+ +IAA+ N VIG MPW + ++L+ FK T G P+VMG TF+SIGR LPGR NI+
Sbjct: 3 VSMIAALANNRVIGLDNKMPWHLPAELQLFKRATLGKPIVMGRNTFESIGRPLPGRLNIV 62
Query: 66 ITRDNTRRASVNPEAVLASSILDSLDLASKTGSKKIFIIGGGEIYAQTISLAHTLYITHI 125
++R PE V + L+ +A+ +++ IIGG IY Q ++ A LY+THI
Sbjct: 63 LSRQ----TDYQPEGVTVVATLEDAVVAAG-DVEELMIIGGATIYNQCLAAADRLYLTHI 117
Query: 126 EKEIEGDVFFPSIDSNIWKKQEKEIITSAGEGDDYPTRFVIYDR 169
E EGD +FP + W++ E E +A + + + RF + +R
Sbjct: 118 ELTTEGDTWFPDYEQYNWQEIEHESY-AADDKNPHNYRFSLLER 160
>3kjr_A Dihydrofolate reductase/thymidylate synthase; microfluidics,
slipchip,structural genomics, PSI-2, protein structure
initiative; HET: NAP NHE; 1.95A {Babesia bovis T2BO}
PDB: 3i3r_A* 3k2h_A*
Length = 511
Score = 157 bits (399), Expect = 1e-39
Identities = 49/193 (25%), Positives = 82/193 (42%), Gaps = 31/193 (16%)
Query: 4 PEIILIAAITRNNVIGSCGGMPWK-ISSDLKRFKSLTTGNP-------------VVMGYR 49
++ + A+ N VIG +PW I+ D + ++ TT P V+ G +
Sbjct: 9 GDLTIFVAVALNKVIGHKNQIPWPHITHDFRFLRNGTTYIPPEVLSKNPDIQNVVIFGRK 68
Query: 50 TFQSIGRL---LPGRTNIIITRDNTRRASVNPEAVLASSILDSL-DLASKTGSKKIFIIG 105
T++SI + L R N+I++R P ++ + ++ DL + KIFI+G
Sbjct: 69 TYESIPKASLPLKNRINVILSRT----VKEVPGCLVYEDLSTAIRDLRANVPHNKIFILG 124
Query: 106 GGEIYAQTISL--AHTLYITHIEKEIEGDVFFPSIDSNIWKKQEKEIITSAGEGDDYPTR 163
G +Y + + +Y+T + KE GD +FP I D
Sbjct: 125 GSFLYKEVLDNGLCDKIYLTRLNKEYPGDTYFPDIPDTFEITAISP----TFSTDFVSYD 180
Query: 164 FVIYDRFLSKNCS 176
FVIY+R K+C
Sbjct: 181 FVIYER---KDCK 190
>3ix9_A Dihydrofolate reductase; central beta sheet surrounded by 4 alpha
helices, oxidoreductase; HET: NDP MTX; 1.95A
{Streptococcus pneumoniae}
Length = 190
Score = 157 bits (398), Expect = 1e-39
Identities = 46/171 (26%), Positives = 79/171 (46%), Gaps = 8/171 (4%)
Query: 1 MTRPEIILIAAITRNNVIGSCGGMPWKISSDLKRFKSLTTGNPVVMGYRTFQS-IGRLLP 59
MT+ +I+ I A VIG +PW + ++L+ FK T + ++MG TF RLLP
Sbjct: 21 MTK-KIVAIWAQDEEGVIGKDNRLPWYLPAELQHFKETTLNHAILMGRVTFDGMGRRLLP 79
Query: 60 GRTNIIITRDNTRRASVNPEAVLASSILDSLDLASKTGSKKIFIIGGGEIYAQTISLAHT 119
R +I+TR+ + V + S+ K ++I+GG +I+
Sbjct: 80 KRETLILTRNP----EEKIDGVATFHDVQSVLDWYSAQEKNLYIVGGKQIFQAFEPYLDE 135
Query: 120 LYITHIEKEIEGDVFFPS-IDSNIWKKQEKEIITSAGEGDDYPTRFVIYDR 169
+ +THI +EGD +FP+ D ++++ + T E + Y R
Sbjct: 136 VIVTHIHARVEGDTYFPAEFDLSLFETVSSKFYT-KDEKNPYDFTIQYRKR 185
>3irm_A Bifunctional dihydrofolate reductase-thymidylate; DHFR-TS
antifolate complex, methyltransfe multifunctional
enzyme, NADP; HET: 1CY; 2.10A {Trypanosoma cruzi} PDB:
3inv_A* 3irn_A* 3iro_A* 2h2q_A* 3cl9_A* 3clb_A* 3hbb_A*
3kjs_A*
Length = 521
Score = 152 bits (386), Expect = 3e-38
Identities = 40/186 (21%), Positives = 71/186 (38%), Gaps = 38/186 (20%)
Query: 1 MTRPEIILIAAITRNNVIGSCGGMPWKISSDLKRFKSLTTG-------------NPVVMG 47
+ L+ A+ + IG +PW + D+K F+ LTT N VVMG
Sbjct: 18 LALRAFSLVVAVDEHGGIGDGRSIPWNVPEDMKFFRDLTTKLRGKNVKPSPAKRNAVVMG 77
Query: 48 YRTFQSIG---RLLPGRTNIIITRDNTRRASVNPE-------------AVLASSILDSLD 91
+T+ SI R LPGR N++++ T + ++ + + +L
Sbjct: 78 RKTWDSIPPKFRPLPGRLNVVLSSTLTTQHLLDGLPDEEKRNLHADSIVAVNGGLEQALR 137
Query: 92 LASK----TGSKKIFIIGGGEIYAQTIS-----LAHTLYITHIEKEIEGDVFFPSIDSNI 142
L + + ++ IGGG +YA+ + L +Y T I F + +
Sbjct: 138 LLASPNYTPSIETVYCIGGGSVYAEALRPPCVHLLQAIYRTTIRASESSCSVFFRVPESG 197
Query: 143 WKKQEK 148
+
Sbjct: 198 TEAAAG 203
>1zdr_A Dihydrofolate reductase; DHFR, NADP, oxidoreductase; 2.00A
{Geobacillus stearothermophilus}
Length = 164
Score = 147 bits (372), Expect = 1e-36
Identities = 53/164 (32%), Positives = 84/164 (51%), Gaps = 5/164 (3%)
Query: 6 IILIAAITRNNVIGSCGGMPWKISSDLKRFKSLTTGNPVVMGYRTFQSIGRLLPGRTNII 65
I I A+ N VIG +PW + +DL FK +T G+ +VMG +TF++IGR LPGR N++
Sbjct: 2 ISHIVAMDENRVIGKDNRLPWHLPADLAYFKRVTMGHAIVMGRKTFEAIGRPLPGRDNVV 61
Query: 66 ITRDNTRRASVNPEAVLASSILDSLDLASKTGSKKIFIIGGGEIYAQTISLAHTLYITHI 125
+T + + R + + + ++FIIGG E++ T+ + LY+T I
Sbjct: 62 VTGNRSFRPEGCLVLHSLEEVKQ----WIASRADEVFIIGGAELFRATMPIVDRLYVTKI 117
Query: 126 EKEIEGDVFFPSIDSNIWKKQEKEIITSAGEGDDYPTRFVIYDR 169
GD F+P I + W+ E + Y F+IY+R
Sbjct: 118 FASFPGDTFYPPISDDEWEIVSYTPG-GKDEKNPYEHAFIIYER 160
>2h2q_A Bifunctional dihydrofolate reductase-thymidylate synthase;
bifunctional enzyme in complex with NADP and DUMP,
oxidoreductase, transferase; HET: NAP DU; 2.40A
{Trypanosoma cruzi} PDB: 3cl9_A* 3clb_A* 3hbb_A*
Length = 521
Score = 146 bits (370), Expect = 2e-36
Identities = 39/186 (20%), Positives = 70/186 (37%), Gaps = 38/186 (20%)
Query: 1 MTRPEIILIAAITRNNVIGSCGGMPWKISSDLKRFKSLTTG-------------NPVVMG 47
+ L+ A+ IG +PW + D+K F+ +TT N VVMG
Sbjct: 18 LALRAFSLVVAVDERGGIGDGRSIPWNVPEDMKFFRDVTTKLRGKNVKPSPAKRNAVVMG 77
Query: 48 YRTFQSIG---RLLPGRTNIIITRDNTRRASV-------------NPEAVLASSILDSLD 91
+T+ SI R LPGR N++++ T + + + + + +L
Sbjct: 78 RKTWDSIPPKFRPLPGRLNVVLSSTLTTQHLLDGLPDEEKRNLHADSIVAVNGGLEQALQ 137
Query: 92 LASK----TGSKKIFIIGGGEIYAQ-----TISLAHTLYITHIEKEIEGDVFFPSIDSNI 142
L + + ++ IGGG +YA+ + L +Y T I F + +
Sbjct: 138 LLASPNYTPSIETVYCIGGGSVYAEALRPPCVHLLQAIYRTTIRASESSCSVFFRVPESG 197
Query: 143 WKKQEK 148
+
Sbjct: 198 TEAAAG 203
>3dau_A Dihydrofolate reductase; oxidoreductase, pseudo-rossmann fold,
adenine nucleotide binding domain, antibiotic
resistance; HET: MTX NAP; 1.50A {Escherichia coli K12}
PDB: 1ddr_A* 1dds_A* 1ra9_A* 1dre_A* 1drh_A* 1dyi_A*
1dyh_A* 1jol_A* 1jom_A* 1ra1_A* 1dyj_A* 1ra3_A* 1ra8_A*
1ra2_A* 1rb2_A* 1rb3_A* 1rc4_A* 1rd7_A* 1re7_A* 1rf7_A*
...
Length = 159
Score = 146 bits (368), Expect = 4e-36
Identities = 60/164 (36%), Positives = 85/164 (51%), Gaps = 7/164 (4%)
Query: 6 IILIAAITRNNVIGSCGGMPWKISSDLKRFKSLTTGNPVVMGYRTFQSIGRLLPGRTNII 65
I LIAA+ + VIG MPW + +DL FK T PV+MG T++SIGR LPGR NII
Sbjct: 2 ISLIAALAVDRVIGMENAMPWNLPADLAWFKRNTLNKPVIMGRHTWESIGRPLPGRKNII 61
Query: 66 ITRDNTRRASVNPEAVLASSILDSLDLASKTGSKKIFIIGGGEIYAQTISLAHTLYITHI 125
++ V + +I A+ +I +IGGG +Y Q + A LY+THI
Sbjct: 62 LSSQPGTDDRVTWVKSVDEAI------AACGDVPEIMVIGGGRVYEQFLPKAQKLYLTHI 115
Query: 126 EKEIEGDVFFPSIDSNIWKKQEKEIITSAGEGDDYPTRFVIYDR 169
+ E+EGD FP + + W+ E A + + F I +R
Sbjct: 116 DAEVEGDTHFPDYEPDDWESVFSEFHD-ADAQNSHSYCFEILER 158
>2w9h_A DHFR, dihydrofolate reductase; NADP, trimethoprim, oxidoreductase,
one-carbon metabolism; HET: TOP; 1.48A {Staphylococcus
aureus} PDB: 2w9g_A* 3fyw_X* 3fyv_X* 3fy8_X* 3fy9_X*
3fq0_A* 3f0b_X* 3fqc_A* 3fqz_A* 3f0u_X* 3fqf_A* 3fqo_A*
3fqv_A* 2w9s_A* 2w9t_A
Length = 159
Score = 142 bits (360), Expect = 3e-35
Identities = 48/164 (29%), Positives = 76/164 (46%), Gaps = 9/164 (5%)
Query: 6 IILIAAITRNNVIGSCGGMPWKISSDLKRFKSLTTGNPVVMGYRTFQSIGRLLPGRTNII 65
+ ++ A VIG +PW + +DLK K L+TG+ +VMG +TF+SIG+ LP R N++
Sbjct: 3 LSILVAHDLQRVIGFENQLPWHLPNDLKHVKKLSTGHTLVMGRKTFESIGKPLPNRRNVV 62
Query: 66 ITRDNTRRASVNPEAVLASSILDSLDLASKTGSKKIFIIGGGEIYAQTISLAHTLYITHI 125
+T D + S++ + +FI GG ++ + I +YIT I
Sbjct: 63 LTSDTSFNVEGVDVI-------HSIEDIYQL-PGHVFIFGGQTLFEEMIDKVDDMYITVI 114
Query: 126 EKEIEGDVFFPSIDSNIWKKQEKEIITSAGEGDDYPTRFVIYDR 169
E + GD FFP W+ E + P F+ R
Sbjct: 115 EGKFRGDTFFPPYTFEDWEVASSV-EGKLDEKNTIPHTFLHLIR 157
>3cse_A Dihydrofolate reductase; protein-ligand complex, oxidoreductase;
HET: NAP N22; 1.60A {Candida glabrata} PDB: 3eej_A*
3eek_A* 3eel_A* 3eem_A*
Length = 227
Score = 142 bits (359), Expect = 4e-35
Identities = 48/166 (28%), Positives = 89/166 (53%), Gaps = 19/166 (11%)
Query: 1 MTR-PEIILIAAITRNNVIGSCGGMPWKISSDLKRFKSLTT-------GNPVVMGYRTFQ 52
M++ P + ++AA+ IG G +PW+++ ++K F+ +TT N V+MG +T++
Sbjct: 1 MSKVPVVGIVAALLPEMGIGFQGNLPWRLAKEMKYFREVTTLTNDNSKQNVVIMGRKTWE 60
Query: 53 SIG---RLLPGRTNIIITRDNTRRASVNPEAVLASSILDS------LDLASKTGSKKIFI 103
SI R LP R N++++R + + S+ L + LA++ ++I+I
Sbjct: 61 SIPQKFRPLPKRINVVVSRSFDGELRKVEDGIYHSNSLRNCLTALQSSLANENKIERIYI 120
Query: 104 IGGGEIYAQTISLAHTLYITHIEKEIEGDVFFPSIDSNIWKKQEKE 149
IGGGEIY Q++ LA IT I + P +D+ + K++ ++
Sbjct: 121 IGGGEIYRQSMDLADHWLITKIMP--LPETTIPQMDTFLQKQELEQ 164
>2w3w_A Dihydrofolate reductase; nonclassical antifolates, one-carbon
metabolism, lipophilic antifolates, NADP,
oxidoreductase; HET: VG9 NDP; 1.60A {Mycobacterium
avium} PDB: 2w3v_A*
Length = 167
Score = 140 bits (353), Expect = 2e-34
Identities = 52/177 (29%), Positives = 84/177 (47%), Gaps = 19/177 (10%)
Query: 1 MTRPEIILIAAITRNNVIGSCGGMPWKISSDLKRFKSLTTGNPVVMGYRTFQSIG---RL 57
MTR E+ L+ A + + VIG G +PW + DL RFK +T G+ V+MG RT++S+ R
Sbjct: 1 MTRAEVGLVWAQSTSGVIGRGGDIPWSVPEDLTRFKEVTMGHTVIMGRRTWESLPAKVRP 60
Query: 58 LPGRTNIIITRDNTRRASVNPEAVLASSILDSLDLASK--TGSKKIFIIGGGEIYAQTIS 115
LPGR N++++R A + SL+ A ++IGG +IY +
Sbjct: 61 LPGRRNVVVSRRPDFVAEGAR-------VAGSLEAALAYAGSDPAPWVIGGAQIYLLALP 113
Query: 116 LAHTLYITHIEKEI---EGDVFFPSIDSNIWKKQEKEIITSAGEGDDYPTRFVIYDR 169
A +T IE ++ + D P++D + + + + RF Y R
Sbjct: 114 HATRCEVTEIEIDLRRDDDDALAPALDDSWVGETGEWLA----SRSGLRYRFHSYRR 166
>1kmv_A DHFR, dihydrofolate reductase; oxidoreductase, antiparasitic drugs,
lipophilic antifolates; HET: LII NDP; 1.05A {Homo
sapiens} SCOP: c.71.1.1 PDB: 1dhf_A* 1hfr_A* 1drf_A*
1kms_A* 1ohj_A* 1ohk_A* 1pd8_A* 1pd9_A* 1pdb_A 1s3u_A*
1s3v_A* 1s3w_A* 1u72_A* 1yho_A* 2c2s_A* 2c2t_A* 2dhf_A*
3ghw_A* 3fs6_A* 1mvs_A* ...
Length = 186
Score = 139 bits (352), Expect = 2e-34
Identities = 43/183 (23%), Positives = 86/183 (46%), Gaps = 17/183 (9%)
Query: 4 PEIILIAAITRNNVIGSCGGMPW-KISSDLKRFKSLTTG-------NPVVMGYRTFQSI- 54
+ I A+++N IG G +PW + ++ + F+ +TT N V+MG +T+ SI
Sbjct: 2 GSLNCIVAVSQNMGIGKNGDLPWPPLRNEFRYFQRMTTTSSVEGKQNLVIMGKKTWFSIP 61
Query: 55 --GRLLPGRTNIIITR--DNTRRASVNPEAVLASSILDSLDLASKTGSKKIFIIGGGEIY 110
R L GR N++++R + + L ++ + ++I+GG +Y
Sbjct: 62 EKNRPLKGRINLVLSRELKEPPQGAHFLSRSLDDALKLTEQPELANKVDMVWIVGGSSVY 121
Query: 111 AQTISLA--HTLYITHIEKEIEGDVFFPSIDSNIWK--KQEKEIITSAGEGDDYPTRFVI 166
+ ++ L++T I ++ E D FFP ID +K + +++ E +F +
Sbjct: 122 KEAMNHPGHLKLFVTRIMQDFESDTFFPEIDLEKYKLLPEYPGVLSDVQEEKGIKYKFEV 181
Query: 167 YDR 169
Y++
Sbjct: 182 YEK 184
>3dfr_A Dihydrofolate reductase; oxido-reductase; HET: NDP MTX; 1.70A
{Lactobacillus casei} SCOP: c.71.1.1 PDB: 1ao8_A*
1bzf_A* 1dis_A* 1diu_A* 1lud_A* 2hm9_A* 2hqp_A*
Length = 162
Score = 132 bits (333), Expect = 4e-32
Identities = 40/163 (24%), Positives = 73/163 (44%), Gaps = 6/163 (3%)
Query: 8 LIAAITRNNVIGSCGGMPWKISSDLKRFKSLTTGNPVVMGYRTFQSI-GRLLPGRTNIII 66
+ A RN +IG G +PW + DL F++ T G +V+G RT++S R LP RTN+++
Sbjct: 3 FLWAQNRNGLIGKDGHLPWHLPDDLHYFRAQTVGKIMVVGRRTYESFPKRPLPERTNVVL 62
Query: 67 TRDNTRRASVNPEAVLASSILDSLDLASKTGSKKIFIIGGGEIYAQTISLAHTLYITHIE 126
T +A AV+ + A + +++ I GG +I+ TL +T +
Sbjct: 63 THQEDYQA---QGAVVVHDVAAVFAYAKQHLDQELVIAGGAQIFTAFKDDVDTLLVTRLA 119
Query: 127 KEIEGDVFFPSIDSNIWKKQEKEIITSAGEGDDYPTRFVIYDR 169
EGD ++ + + K + + ++ +
Sbjct: 120 GSFEGDTKMIPLNWDDFTKVSSRTV--EDTNPALTHTYEVWQK 160
>1vdr_A DHFR, dihydrofolate reductase; oxidoreductase, halophilic enzyme;
2.55A {Haloferax volcanii} SCOP: c.71.1.1 PDB: 2ith_A
2jyb_A
Length = 162
Score = 132 bits (332), Expect = 6e-32
Identities = 46/166 (27%), Positives = 83/166 (50%), Gaps = 11/166 (6%)
Query: 5 EIILIAAITRNNVIGSCGGMPW-KISSDLKRFKSLTTGNPVVMGYRTFQSIGRLLPGRTN 63
E++ +AA+ N VIG G +PW I +D K+++S +PVV+G TF+S+ LPG
Sbjct: 2 ELVSVAALAENRVIGRDGELPWPSIPADKKQYRSRIADDPVVLGRTTFESMRDDLPGSAQ 61
Query: 64 IIITRDNTRRASVNPEAVLASSILDSLDLASKTGSKKIFIIGGGEIYAQTISLAHTLYIT 123
I+++R A A+S+ +++D+A+ ++ ++IGG IYA + ++
Sbjct: 62 IVMSRSERS--FSVDTAHRAASVEEAVDIAASLDAETAYVIGGAAIYALFQPHLDRMVLS 119
Query: 124 HIEKEIEGDVFFPSIDSNIWKKQEKEIITSAGEGDDYPTRFVIYDR 169
+ E EGD ++P D+ W+ + D + R
Sbjct: 120 RVPGEYEGDTYYPEWDAAEWELDAET--------DHEGFTLQEWVR 157
>1j3k_A Bifunctional dihydrofolate reductase-thymidylate synthase;
oxidoreductase, transferase; HET: WRA NDP UMP; 2.10A
{Plasmodium falciparum} SCOP: c.71.1.1 PDB: 3dg8_A*
1j3j_A* 1j3i_A* 3dga_A*
Length = 280
Score = 130 bits (327), Expect = 2e-31
Identities = 49/201 (24%), Positives = 84/201 (41%), Gaps = 45/201 (22%)
Query: 15 NNVIGSCGGMPWK-ISSDLKRFKSLTT--------------------------------- 40
+G+ G +PWK IS D+K F+++TT
Sbjct: 37 FRGLGNKGVLPWKCISLDMKYFRAVTTYVNESKYEKLKYKRCKYLNKETVDNVNDMPNSK 96
Query: 41 --GNPVVMGYRTFQSIG---RLLPGRTNIIITRDNTRRASVNPEAVLASSILDSLDLASK 95
N VVMG ++SI + L R N+I++R ++ + + + + + D + L K
Sbjct: 97 KLQNVVVMGRTNWESIPKKFKPLSNRINVILSR-TLKKEDFDEDVYIINKVEDLIVLLGK 155
Query: 96 TGSKKIFIIGGGEIYAQTIS--LAHTLYITHIEKEIEGDVFFPSIDSNIWKKQEKEIITS 153
K FI+GG +Y + + L +Y T I E DVFFP I+ N ++ +
Sbjct: 156 LNYYKCFILGGSVVYQEFLEKKLIKKIYFTRINSTYECDVFFPEINENEYQIISVSDVY- 214
Query: 154 AGEGDDYPTRFVIYDRFLSKN 174
++ F+IY + +K
Sbjct: 215 --TSNNTTLDFIIYKKTNNKM 233
>1juv_A DHFR, dihydrofolate reductase; complexed with NADPH,
oxidoreductase; HET: NDP; 1.70A {Enterobacteria phage
T4} SCOP: c.71.1.1
Length = 193
Score = 129 bits (326), Expect = 2e-31
Identities = 36/186 (19%), Positives = 66/186 (35%), Gaps = 29/186 (15%)
Query: 7 ILIAAITRNNVIGSCGGMPW-KISSDLKRFKSLTTGNPVVMGYRTFQSIGRLLPGRTNII 65
G G+PW ++ DL+ FK+ T G ++MG +TFQS+ LLPGR++I+
Sbjct: 11 TKTVDGFNELAFGLGDGLPWGRVKKDLQNFKARTEGTIMIMGAKTFQSLPTLLPGRSHIV 70
Query: 66 ITRDNTRRA------------------SVNPEAVLASSILDSLDLASKTGSKKIFIIGGG 107
+ + + S ++ + K+ +IGG
Sbjct: 71 VCDLARDYPVTKDGDLAHFYITWEQYITYISGGEIQVSSPNAPFETMLDQNSKVSVIGGP 130
Query: 108 EIYAQTISLAHTLYITHIEKE------IEGDVFFPSIDSNIWKKQEKEIITSAGEGDDYP 161
+ + A + ++ I K ++ D F D + + E E
Sbjct: 131 ALLYAALPYADEVVVSRIVKRHRVNSTVQLDASFL-DDISKREMVETHWYK-IDEVTTL- 187
Query: 162 TRFVIY 167
+Y
Sbjct: 188 -TESVY 192
>1df7_A DHFR, dihydrofolate reductase; structure-based inhibitor design,
folateanalogs, rossmann fold, nicotinamide adenine
dinucleotide; HET: NDP MTX; 1.70A {Mycobacterium
tuberculosis} SCOP: c.71.1.1 PDB: 1dg5_A* 1dg7_A*
1dg8_A* 2cig_A*
Length = 159
Score = 129 bits (325), Expect = 3e-31
Identities = 49/170 (28%), Positives = 80/170 (47%), Gaps = 19/170 (11%)
Query: 6 IILIAAITRNNVIGSCGGMPWKISSDLKRFKSLTTGNPVVMGYRTFQSIG---RLLPGRT 62
+ LI A + VIG G +PW++ D F+ +T G+ +VMG RT+ S+ R LPGR
Sbjct: 2 VGLIWAQATSGVIGRGGDIPWRLPEDQAHFREITMGHTIVMGRRTWDSLPAKVRPLPGRR 61
Query: 63 NIIITRDNTRRASVNPEAVLASSILDSLDLASKTGSKKIFIIGGGEIYAQTISLAHTLYI 122
N++++R AS ++ SL+ A + + ++IGGG++YA + A +
Sbjct: 62 NVVLSRQADFMASGAE-------VVGSLEEALTS--PETWVIGGGQVYALALPYATRCEV 112
Query: 123 THIE---KEIEGDVFFPSIDSNIWKKQEKEIITSAGEGDDYPTRFVIYDR 169
T ++ GD P +D W+ + E S R Y R
Sbjct: 113 TEVDIGLPREAGDALAPVLDET-WRGETGEWRFSR---SGLRYRLYSYHR 158
>2fzi_A Dihydrofolate reductase; trimethoprim derivatives, ring stacking
interactions, oxidoreductase; HET: NAP DH3; 1.60A
{Pneumocystis carinii} SCOP: c.71.1.1 PDB: 1daj_A*
1cd2_A* 1e26_A* 1klk_A* 1ly3_A* 1ly4_A* 1s3y_A* 2cd2_A*
2fzh_A* 1dyr_A* 3cd2_A* 4cd2_A* 1vj3_A*
Length = 206
Score = 123 bits (310), Expect = 2e-29
Identities = 49/201 (24%), Positives = 81/201 (40%), Gaps = 34/201 (16%)
Query: 3 RPEIILIAAITRNNVIGSCGGMPWKISSDLKRFKSLTTGNP----------VVMGYRTFQ 52
+ + LI A+T + IG +PWK+ ++ FK +T+ P V+MG +T++
Sbjct: 4 QKSLTLIVALTTSYGIGRSNSLPWKLKKEISYFKRVTSFVPTFDSFESMNVVLMGRKTWE 63
Query: 53 SI---GRLLPGRTNIIITRDNTRRA-----SVNPEAVLASSILDSLDLASKTGSKKIFII 104
SI R L GR N++ITR+ + S + + S +IF+I
Sbjct: 64 SIPLQFRPLKGRINVVITRNESLDLGNGIHSAKSLDHALELLYRTYGSESSVQINRIFVI 123
Query: 105 GGGEIYAQTIS--LAHTLYITHIEKEIEGDVFFPS-IDSNIWKKQEKE------------ 149
GG ++Y + + T I K+I DVFFP W K+
Sbjct: 124 GGAQLYKAAMDHPKLDRIMATIIYKDIHCDVFFPLKFRDKEWSSVWKKEKHSDLESWVGT 183
Query: 150 -IITSAGEGDDYPTRFVIYDR 169
+ D + F ++ R
Sbjct: 184 KVPHGKINEDGFDYEFEMWTR 204
>1aoe_A DHFR, dihydrofolate reductase; oxidoreductase, antifungal target;
HET: NDP GW3; 1.60A {Candida albicans} SCOP: c.71.1.1
PDB: 1ai9_A* 1ia1_A* 1ia2_A* 1ia3_A* 1ia4_A* 1m78_A*
1m79_A* 1m7a_A*
Length = 192
Score = 122 bits (306), Expect = 5e-29
Identities = 63/195 (32%), Positives = 98/195 (50%), Gaps = 30/195 (15%)
Query: 1 MTRPEI-ILIAAITRNNVIGSCGGMPWKISSDLKRFKSLTT-------GNPVVMGYRTFQ 52
M +P + I++AA+ IG G MPW++ +++ FK +TT N V+MG +T++
Sbjct: 1 MLKPNVAIIVAALKPALGIGYKGKMPWRLRKEIRYFKDVTTRTTKPNTRNAVIMGRKTWE 60
Query: 53 SIG---RLLPGRTNIIITRDNTRRASVNPEAVLASSILDSLDLASKTGSKKIFIIGGGEI 109
SI R LP R NII++R + ++ + ASSI SL+L S +++FIIGG EI
Sbjct: 61 SIPQKFRPLPDRLNIILSR-SYENEIIDDNIIHASSIESSLNLVSDV--ERVFIIGGAEI 117
Query: 110 YAQTIS--LAHTLYITHIE----KEIEGDVFFPSIDSNIWKKQEKE---------IITSA 154
Y + I+ L L IT IE + IE D F W KQ K ++
Sbjct: 118 YNELINNSLVSHLLITEIEHPSPESIEMDTFLK-FPLESWTKQPKSELQKFVGDTVLEDD 176
Query: 155 GEGDDYPTRFVIYDR 169
+ D+ + ++ R
Sbjct: 177 IKEGDFTYNYTLWTR 191
>2bl9_A Dihydrofolate reductase-thymidylate synthase; plamodium vivax,
pyrimethamine, malaria, drug resistance, oxidoreductase;
HET: NDP CP6; 1.9A {Plasmodium vivax} PDB: 2blb_A*
2blc_A* 2bla_A*
Length = 238
Score = 115 bits (288), Expect = 7e-27
Identities = 49/206 (23%), Positives = 79/206 (38%), Gaps = 55/206 (26%)
Query: 15 NNVIGSCGGMPWKI-SSDLKRFKSLTT--------------------------------- 40
+G+ G +PWK S D+K F S+TT
Sbjct: 36 FRGLGNKGTLPWKCNSVDMKYFSSVTTYVDESKYEKLKWKRERYLRMEASQGGGDNTSGG 95
Query: 41 ------------GNPVVMGYRTFQSIG---RLLPGRTNIIITRDNTRRASVNPEAVLASS 85
N VVMG +++SI + LP R N+++++ + V + + S
Sbjct: 96 DNTHGGDNADKLQNVVVMGRSSWESIPKQYKPLPNRINVVLSK-TLTKEDVKEKVFIIDS 154
Query: 86 ILDSLDLASKTGSKKIFIIGGGEIYAQTIS--LAHTLYITHIEKEIEGDVFFPSIDSNIW 143
I D K K FIIGG ++Y + +S L +Y T I DVFFP D + +
Sbjct: 155 IDDXXXXXKKLKYYKCFIIGGAQVYRECLSRNLIKQIYFTRINGAYPCDVFFPEFDESEF 214
Query: 144 KKQEKEIITSAGEGDDYPTRFVIYDR 169
+ + +G F++Y +
Sbjct: 215 RVTSVSEVY-NSKGTTL--DFLVYSK 237
>1cz3_A Dihydrofolate reductase; dimer, hyperthermophIle, oxidoreductase;
2.10A {Thermotoga maritima} SCOP: c.71.1.1 PDB: 1d1g_A*
Length = 168
Score = 90.3 bits (223), Expect = 2e-19
Identities = 38/166 (22%), Positives = 68/166 (40%), Gaps = 8/166 (4%)
Query: 5 EIILIAAITRNNVIGSCGGMPWKISSDLKRFKSLTTG-NPVVMGYRTFQSIGRLLPGRTN 63
++I + A+ + I S W D K F+ +TT VVMG TF+ IGR LP R N
Sbjct: 2 KVIFVLAMDVSGKIAS-SVESWSSFEDRKNFRKITTEIGNVVMGRITFEEIGRPLPERLN 60
Query: 64 IIITRDNTRRASVNPEAVLASSILDSLDLASKTGSKKIFIIGGGEIYAQTISL--AHTLY 121
+++TR + + S D + G +++ +IGG ++ + + L+
Sbjct: 61 VVLTRRPKTSNNPSLV-FFNGSPADVVKFLEGKGYERVAVIGGKTVFTEFLREKLVDELF 119
Query: 122 ITHIEKEI-EGDVFFPSIDSNIWKKQEKEIITSAGEGDDYPTRFVI 166
+T +G FF + K + E ++ +
Sbjct: 120 VTVEPYVFGKGIPFFDEFEGYFPLKLLEM--RRLNERGTLFLKYSV 163
>3jtw_A Dihydrofolate reductase; YP_805003.1, structural genomics, joint
center for structural genomics, JCSG; 1.90A {Pediococcus
pentosaceus atcc 25745}
Length = 178
Score = 37.1 bits (85), Expect = 0.002
Identities = 29/157 (18%), Positives = 58/157 (36%), Gaps = 16/157 (10%)
Query: 1 MTRPEIILIAAITRNNVI-GSCGGMPWKIS------SDLKRFKSLTTGNPVVMGYRTFQS 53
M R ++IL A++ +N I G + W SD K + + V+MG T++
Sbjct: 2 MAR-KVILFIAMSIDNYIADDQGAVDWLEKNVHGTESDDSYEKMYSKIDTVIMGRTTYEQ 60
Query: 54 IGRLLPGR-----TNIIITRDNTRRASVNPEAVLASSILDSLDLASKTGSKKIFIIGGGE 108
+ + L + + S ++ + K K ++I+GG +
Sbjct: 61 VTQKLSPEKYVYADRQTYIVTSHLGEDTDKIKYWKQSPVELVKRIQKEKGKDVWIVGGAK 120
Query: 109 IYAQTIS--LAHTLYITHIEKEI-EGDVFFPSIDSNI 142
I + L T +T + + G F ++ +
Sbjct: 121 IIDPLVQANLIDTYILTTVPIFLGSGIRLFDRLEEQV 157
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl
reductase, beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 32.9 bits (74), Expect = 0.042
Identities = 24/81 (29%), Positives = 34/81 (41%), Gaps = 14/81 (17%)
Query: 1 MTRPEIILIAAITRNNVIGSCG-GMPWKISSDLKRFKSLTTGNP----VVMGYRTFQSIG 55
M+RP A TRN + + G G+ + +DL +L G P V M IG
Sbjct: 1166 MSRP-----ATTTRNGFMEAQGAGIQIIMQADL----ALKMGVPIYGIVAMAATATDKIG 1216
Query: 56 RLLPGRTNIIITRDNTRRASV 76
R +P I+T +SV
Sbjct: 1217 RSVPAPGKGILTTAREHHSSV 1237
>2dwc_A PH0318, 433AA long hypothetical phosphoribosylglycinamide formyl
transferase; purine ribonucleotide biosynthesis, PURT;
HET: ADP; 1.70A {Pyrococcus horikoshii OT3} PDB: 2czg_A*
Length = 433
Score = 30.4 bits (67), Expect = 0.22
Identities = 10/37 (27%), Positives = 21/37 (56%), Gaps = 1/37 (2%)
Query: 81 VLASSILDSLDLASKTGSKKIFIIGGGEIYAQTISLA 117
V+ + D L A+ ++KI ++G GE+ + I++
Sbjct: 2 VVMIKLRDELGTATTDSAQKILLLGSGEL-GKEIAIE 37
>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 = 29.5 bits (66), Expect = 0.37
Identities = 13/73 (17%), Positives = 25/73 (34%), Gaps = 7/73 (9%)
Query: 58 LPGRTNIIITRDNTRRASVNPEAVLASSILDSLDLASKTGSKKIFIIGGG----EIYAQT 113
L +I R + P ++S L A G+ ++ I GG + Y +
Sbjct: 116 LVKTKELIKNYITARIMAKRPFDKKSNSAL--FR-AVGEGNAQLVAIFGGQGNTDDYFEE 172
Query: 114 ISLAHTLYITHIE 126
+ + Y +
Sbjct: 173 LRDLYQTYHVLVG 185
Score = 28.0 bits (62), Expect = 1.1
Identities = 28/137 (20%), Positives = 55/137 (40%), Gaps = 44/137 (32%)
Query: 43 PV---VMG------YR-TFQSIGRLLPG--RTNI---------IITRDNTRRASVNPEAV 81
P+ ++G Y T + +G PG R+ + ++T A A+
Sbjct: 235 PISCPLIGVIQLAHYVVTAKLLG-FTPGELRSYLKGATGHSQGLVT------AV----AI 283
Query: 82 LASSILDSLDLASKTGSKKIFIIG--GGEIYAQTISLAHTLYITHIEKEIEGDVFFP--- 136
+ +S ++ + +F IG E Y T SL ++ +E +E + P
Sbjct: 284 AETDSWESFFVSVRKAITVLFFIGVRCYEAYPNT-SLPPSI----LEDSLENNEGVPSPM 338
Query: 137 -SIDSNIWKKQEKEIIT 152
SI SN+ ++Q ++ +
Sbjct: 339 LSI-SNLTQEQVQDYVN 354
>3ics_A Coenzyme A-disulfide reductase; pyridine nucleotide-disulfide
oxidoreductase class I, rhodanese, flavin adenine
dinucleotide; HET: FAD COA ADP; 1.94A {Bacillus
anthracis} PDB: 3icr_A* 3ict_A*
Length = 588
Score = 28.8 bits (63), Expect = 0.68
Identities = 12/49 (24%), Positives = 21/49 (42%), Gaps = 4/49 (8%)
Query: 84 SSILDSLDLASKTGSKKIFIIGGG----EIYAQTISLAHTLYITHIEKE 128
L D + GS+KI ++GG + A+ L+ I +E+
Sbjct: 22 GRTLYDDDDKDRWGSRKIVVVGGVAGGASVAARLRRLSEEDEIIMVERG 70
>3oj0_A Glutr, glutamyl-tRNA reductase; structural genomics, PSI-2, protein
structure initiative, MI center for structural genomics,
MCSG; HET: MSE SO4; 1.65A {Thermoplasma volcanium}
Length = 144
Score = 28.4 bits (63), Expect = 1.0
Identities = 11/33 (33%), Positives = 15/33 (45%), Gaps = 2/33 (6%)
Query: 77 NPEAVLASSILDSLDLASKTGSKKIFIIGGGEI 109
N V SI D+ K G KI ++G G +
Sbjct: 2 NAGKVSIPSI--VYDIVRKNGGNKILLVGNGML 32
>2gd9_A Hypothetical protein YYAP; 2636623, structural genomics, joint
center for structural genomics, JCSG, protein structure
initiative, PSI; 2.30A {Bacillus subtilis}
Length = 189
Score = 27.9 bits (61), Expect = 1.3
Identities = 29/161 (18%), Positives = 58/161 (36%), Gaps = 19/161 (11%)
Query: 1 MTRPEIILIAAITRNNVI-GSCGGMPWKISSDLKRFKSLTTGNPVVM-GYRTFQSIGRLL 58
+ + IIL A+T + I G G + W I F ++ G ++F G+ +
Sbjct: 6 LKQRRIILDLAVTLDGFIEGKNGEVDWCIMDPDMGFTDFLNQIDTILYGRKSFDLWGQYI 65
Query: 59 PGRTNIIITRDNTRRASVNPEAVLASS--------------ILDSLDLASKTGSKKIFII 104
P + ++ + + V + + IL+ ++ K K I++
Sbjct: 66 PKNEDPDTEKELWKLVHSKKKYVFSRTQNEIDNQAIFINDNILEEVNKLKKNPGKDIWLY 125
Query: 105 GGGEIYAQTIS--LAHTLYITHIEKEI-EGDVFFPSIDSNI 142
GG + I+ L ++ + EG F + I
Sbjct: 126 GGASLITTFINLGLVDEFRLSIHPVVLGEGKPLFIDVKQRI 166
>1ewn_A 3-methyl-adenine DNA glycosylase; DNA repair, AAG, ANPG, MPG,
hydrolase/DNA complex; HET: DNA EDA; 2.10A {Homo
sapiens} SCOP: b.46.1.2 PDB: 1f4r_A* 1f6o_A* 1bnk_A*
Length = 219
Score = 27.5 bits (61), Expect = 1.5
Identities = 7/24 (29%), Positives = 11/24 (45%), Gaps = 1/24 (4%)
Query: 151 ITSAGEGDDYPTRFVIYD-RFLSK 173
+ AGE P RF + ++S
Sbjct: 185 VGHAGEWARKPLRFYVRGSPWVSV 208
>1xhc_A NADH oxidase /nitrite reductase; southeast collaboratory for
structural genomics, secsg, hyperthermophIle; HET: FAD;
2.35A {Pyrococcus furiosus dsm 3638} SCOP: c.3.1.5
c.3.1.5 d.87.1.1
Length = 367
Score = 27.4 bits (59), Expect = 1.8
Identities = 10/31 (32%), Positives = 16/31 (51%), Gaps = 1/31 (3%)
Query: 99 KKIFIIGGGEI-YAQTISLAHTLYITHIEKE 128
K+ I+G G + L+ T +T I+KE
Sbjct: 9 SKVVIVGNGPGGFELAKQLSQTYEVTVIDKE 39
>3lc0_A Histidyl-tRNA synthetase; tRNA-ligase, aminoacyl-tRNA synthetase,
ligase, structural genomics; HET: HIS; 1.80A
{Trypanosoma cruzi} PDB: 3hrk_A* 3hrj_A* 3hri_A
Length = 456
Score = 27.2 bits (59), Expect = 2.0
Identities = 7/49 (14%), Positives = 20/49 (40%), Gaps = 3/49 (6%)
Query: 68 RDNTRRASVNPEAVLASSILDSLDLASKTGSKKIFIIGGGEIYAQTISL 116
RD R A + + ++ + + A + G+ + ++ E + +
Sbjct: 385 RDAGRSADIILDK---KKVVQAFNYADRVGAVRAVLVAPEEWERGEVQV 430
>1inl_A Spermidine synthase; beta-barrel, rossman fold, structural
genomics, PSI, protein structure initiative; 1.50A
{Thermotoga maritima} SCOP: c.66.1.17 PDB: 1jq3_A*
Length = 296
Score = 26.1 bits (57), Expect = 4.1
Identities = 15/71 (21%), Positives = 25/71 (35%), Gaps = 6/71 (8%)
Query: 92 LASKTGSKKIFIIGGGEIYAQTISLAHTLYITHIEKEIEGDV------FFPSIDSNIWKK 145
+ KK+ IIGGG+ L H I E++G V +
Sbjct: 85 MFLHPNPKKVLIIGGGDGGTLREVLKHDSVEKAILCEVDGLVIEAARKYLKQTSCGFDDP 144
Query: 146 QEKEIITSAGE 156
+ + +I + E
Sbjct: 145 RAEIVIANGAE 155
>2wl2_A GYRA, DNA gyrase subunit A; isomerase, aminocoumarin antibiotic,
drug target, protein-ligand complex; HET: DNA SM8; 2.62A
{Escherichia coli} PDB: 1ab4_A 1x75_A*
Length = 522
Score = 26.0 bits (57), Expect = 4.4
Identities = 16/75 (21%), Positives = 29/75 (38%)
Query: 93 ASKTGSKKIFIIGGGEIYAQTISLAHTLYITHIEKEIEGDVFFPSIDSNIWKKQEKEIIT 152
A +TG K++I E+ + T+ + I ++ I + +K+ + I
Sbjct: 231 AYRTGRGKVYIRARAEVEVDAKTGRETIIVHEIPYQVNKARLIEKIAELVKEKRVEGISA 290
Query: 153 SAGEGDDYPTRFVIY 167
E D R VI
Sbjct: 291 LRDESDKDGMRIVIE 305
>2o34_A Hypothetical protein; structural genomics, PSI, protein structure
initiative, NEW YORK SGX research center for structural
genomics; HET: MSE; 1.95A {Desulfovibrio vulgaris} SCOP:
d.96.2.2
Length = 250
Score = 26.0 bits (57), Expect = 4.4
Identities = 10/39 (25%), Positives = 18/39 (46%)
Query: 72 RRASVNPEAVLASSILDSLDLASKTGSKKIFIIGGGEIY 110
R V P A +A +I + S ++ + GG++Y
Sbjct: 95 RLVGVGPFAAVAGTIAQMVAERFVDVSPELIVENGGDLY 133
>2e0n_A Precorrin-2 C20-methyltransferase; cobalt-factor II, tetrapyrrole,
S- adenosylmethionine; HET: SAH; 2.00A {Chlorobaculum
tepidum} PDB: 2e0k_A*
Length = 259
Score = 26.0 bits (56), Expect = 4.5
Identities = 12/96 (12%), Positives = 35/96 (36%), Gaps = 15/96 (15%)
Query: 3 RPEIILIAAITRNNVIGSCGGMPWKISSDLKRFKSLTTGNPVVMGYRTF---QSIGRLL- 58
E+ V+ + ++ S L+R P + + + I +
Sbjct: 163 IGELERALVTHSTVVVMKLSTVRDELVSFLER-----YAKPFLYAEKVGMAGEFITMEVD 217
Query: 59 --PGRT----NIIITRDNTRRASVNPEAVLASSILD 88
R ++++ + R+++++P A ++ L+
Sbjct: 218 ALRSRAIPYFSLLVCSPHCRQSTLSPFASKLAAALE 253
>1kjq_A GART 2, phosphoribosylglycinamide formyltransferase 2, 5'-;
ATP-grAsp, purine biosynthesis, nucleotide; HET: ADP
MPO; 1.05A {Escherichia coli} SCOP: b.84.2.1 c.30.1.1
d.142.1.2 PDB: 1kj9_A* 1kji_A* 1kjj_A* 1kj8_A* 1eyz_A*
1ez1_A*
Length = 391
Score = 26.1 bits (56), Expect = 4.6
Identities = 3/15 (20%), Positives = 10/15 (66%)
Query: 95 KTGSKKIFIIGGGEI 109
+ + ++ ++G GE+
Sbjct: 8 RPAATRVMLLGSGEL 22
>1m3s_A Hypothetical protein YCKF; structural genomics, PSI, protein
structure initiative, midwest center for structural
genomics, MCSG; 1.95A {Bacillus subtilis} SCOP: c.80.1.3
PDB: 1viv_A
Length = 186
Score = 26.2 bits (57), Expect = 4.7
Identities = 11/44 (25%), Positives = 15/44 (34%)
Query: 98 SKKIFIIGGGEIYAQTISLAHTLYITHIEKEIEGDVFFPSIDSN 141
S +IF G G S A L I G++ P +
Sbjct: 37 SHQIFTAGAGRSGLMAKSFAMRLMHMGFNAHIVGEILTPPLAEG 80
>2o07_A Spermidine synthase; structural genomics, structural genomics
consortium, SGC, transferase; HET: SPD MTA; 1.89A {Homo
sapiens} SCOP: c.66.1.17 PDB: 2o06_A* 2o05_A* 2o0l_A*
Length = 304
Score = 25.8 bits (56), Expect = 5.1
Identities = 18/86 (20%), Positives = 30/86 (34%), Gaps = 9/86 (10%)
Query: 92 LASKTGSKKIFIIGGGEIYAQTISLAHTLYITHIEKEIEGDV------FFPSIDSNIWKK 145
L S +K+ IIGGG+ + H + ++ EI+ DV F P +
Sbjct: 90 LCSHPNPRKVLIIGGGDGGVLREVVKHPSVESVVQCEIDEDVIQVSKKFLPGMAIGYSSS 149
Query: 146 QEKEIITSAGEGDDYPTR---FVIYD 168
+ + E +I D
Sbjct: 150 KLTLHVGDGFEFMKQNQDAFDVIITD 175
>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 = 26.0 bits (57), Expect = 5.3
Identities = 10/46 (21%), Positives = 13/46 (28%), Gaps = 21/46 (45%)
Query: 21 CGGMPWKISSDLKRFKSLTTGNPV------VMG---------YRTF 51
C P KI G+ V V+ +RTF
Sbjct: 27 CKVYPPKIVERFSE------GDVVCALCGLVLSDKLVDTRSEWRTF 66
>2hl0_A Threonyl-tRNA synthetase; translation, editing, aminoacyl-tRNA
synthetase, enzyme mechanism, enantioselectivity,
ligase; HET: A3S; 1.86A {Pyrococcus abyssi} PDB: 2hkz_A
1y2q_A* 2hl2_A* 2hl1_A*
Length = 143
Score = 25.9 bits (57), Expect = 5.6
Identities = 7/27 (25%), Positives = 15/27 (55%)
Query: 77 NPEAVLASSILDSLDLASKTGSKKIFI 103
NPE V +I + +A + ++ +F+
Sbjct: 52 NPEEVSLKAIEEISKVAEQVKAENVFV 78
>3k5i_A Phosphoribosyl-aminoimidazole carboxylase; purine biosynthesis,
ATP-grAsp, lyase; HET: NHE ADP AIR; 2.00A {Aspergillus
clavatus} PDB: 3k5h_A*
Length = 403
Score = 25.3 bits (54), Expect = 6.9
Identities = 5/12 (41%), Positives = 11/12 (91%)
Query: 98 SKKIFIIGGGEI 109
S+K+ ++GGG++
Sbjct: 24 SRKVGVLGGGQL 35
>1fw8_A PGK P72, phosphoglycerate kinase; phosphotransferase, glycolysis,
mutant, permutation, permuted sequence, protein folding;
2.30A {Saccharomyces cerevisiae} SCOP: c.86.1.1
Length = 416
Score = 25.4 bits (55), Expect = 7.3
Identities = 8/34 (23%), Positives = 14/34 (41%)
Query: 92 LASKTGSKKIFIIGGGEIYAQTISLAHTLYITHI 125
+ + + IIGGG+ T I+H+
Sbjct: 286 VVKSSAAGNTVIIGGGDTATVAKKYGVTDKISHV 319
>1wu7_A Histidyl-tRNA synthetase; ligase, structural genomics, dimer; 2.40A
{Thermoplasma acidophilum} SCOP: c.51.1.1 d.104.1.1
Length = 434
Score = 25.5 bits (54), Expect = 7.3
Identities = 8/49 (16%), Positives = 17/49 (34%), Gaps = 3/49 (6%)
Query: 68 RDNTRRASVNPEAVLASSILDSLDLASKTGSKKIFIIGGGEIYAQTISL 116
R+ +V + L AS G+ I G ++ +++
Sbjct: 356 RERGMNVTVEIME---RGLSAQLKYASAIGADFAVIFGERDLERGVVTI 401
>1x0v_A GPD-C, GPDH-C, glycerol-3-phosphate dehydrogenase [NAD+],
cytoplasmic; two independent domains, GXGXXG motif,
oxidoreductase; 2.30A {Homo sapiens} PDB: 1x0x_A*
1wpq_A* 2pla_A*
Length = 354
Score = 25.3 bits (54), Expect = 7.7
Identities = 15/64 (23%), Positives = 26/64 (40%), Gaps = 4/64 (6%)
Query: 98 SKKIFIIGGGEIYAQTISLAHTL-YITHIEKEIEGDVFFPSIDSNIWKKQEKEIITSAGE 156
SKK+ I+G G ++A + + + V + +I K+ EII + E
Sbjct: 8 SKKVCIVGSG---NWGSAIAKIVGGNAAQLAQFDPRVTMWVFEEDIGGKKLTEIINTQHE 64
Query: 157 GDDY 160
Y
Sbjct: 65 NVKY 68
>1qe0_A Histidyl-tRNA synthetase; class II tRNA synthetase, beta sheet,
ligase; 2.70A {Staphylococcus aureus} SCOP: c.51.1.1
d.104.1.1
Length = 420
Score = 25.3 bits (54), Expect = 8.2
Identities = 11/49 (22%), Positives = 19/49 (38%), Gaps = 3/49 (6%)
Query: 68 RDNTRRASVNPEAVLASSILDSLDLASKTGSKKIFIIGGGEIYAQTISL 116
R N +A + I + A + G+K +IG E+ I +
Sbjct: 353 RHNGIKADKDYLQ---RKIKGQMKQADRLGAKFTIVIGDQELENNKIDV 398
>1kyq_A Met8P, siroheme biosynthesis protein Met8; homodimer,
oxidoreductase, lyase; HET: NAD; 2.20A {Saccharomyces
cerevisiae} SCOP: c.2.1.11 e.37.1.1
Length = 274
Score = 25.0 bits (54), Expect = 9.3
Identities = 11/24 (45%), Positives = 17/24 (70%)
Query: 86 ILDSLDLASKTGSKKIFIIGGGEI 109
++ SL LA + K+I +IGGGE+
Sbjct: 1 MVKSLQLAHQLKDKRILLIGGGEV 24
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
0.319 0.137 0.396
Gapped
Lambda K H
0.267 0.0516 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,527,033
Number of extensions: 67981
Number of successful extensions: 405
Number of sequences better than 10.0: 1
Number of HSP's gapped: 307
Number of HSP's successfully gapped: 68
Length of query: 176
Length of database: 5,693,230
Length adjustment: 86
Effective length of query: 90
Effective length of database: 3,608,246
Effective search space: 324742140
Effective search space used: 324742140
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 (21.7 bits)
S2: 53 (24.7 bits)