RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13437
(80 letters)
>2diq_A Tudor and KH domain-containing protein; tudor domain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} SCOP:
b.34.9.1
Length = 110
Score = 78.3 bits (193), Expect = 6e-21
Identities = 29/65 (44%), Positives = 38/65 (58%), Gaps = 1/65 (1%)
Query: 2 GGWFRAQILAVDVVNASCQVKFVDYGGYLTLETSALRQIRADFLSLPFQAIECGLANIVP 61
G W+RA++L N + + FVD+G LR +R+DFLSLPFQAIEC LA I
Sbjct: 47 GSWYRARVLGTLE-NGNLDLYFVDFGDNGDCPLKDLRALRSDFLSLPFQAIECSLARIAS 105
Query: 62 VGTDG 66
+ G
Sbjct: 106 GPSSG 110
>3fdr_A Tudor and KH domain-containing protein; TDRD2, structural
genomics, structural genomics consortium, SGC,
alternative splicing, RNA-binding; 1.75A {Homo sapiens}
Length = 94
Score = 71.0 bits (174), Expect = 3e-18
Identities = 25/53 (47%), Positives = 33/53 (62%), Gaps = 1/53 (1%)
Query: 2 GGWFRAQILAVDVVNASCQVKFVDYGGYLTLETSALRQIRADFLSLPFQAIEC 54
G W+RA++L N + + FVD+G LR +R+DFLSLPFQAIEC
Sbjct: 42 GSWYRARVLGTLE-NGNLDLYFVDFGDNGDCPLKDLRALRSDFLSLPFQAIEC 93
>3ntk_A Maternal protein tudor; tudor domain, OB-fold, GERM cell formation,
transcription; 1.80A {Drosophila melanogaster} PDB:
3nth_A* 3nti_A*
Length = 169
Score = 65.7 bits (160), Expect = 2e-15
Identities = 17/78 (21%), Positives = 27/78 (34%), Gaps = 3/78 (3%)
Query: 2 GGWFRAQILAVDVVNASCQVKFVDYGGYLTLETSALRQIRADFLSLPFQAIECGLANIVP 61
++RAQI V + C+V F+D+G RQ+ + + C L
Sbjct: 62 EVFYRAQIRKVLD-DGKCEVHFIDFGNNAVT--QQFRQLPEELAKPARYSRHCELDASTI 118
Query: 62 VGTDGEYNIILIVERIGK 79
D I R +
Sbjct: 119 SKCDAALLQSFIDTRFSE 136
>3bdl_A Staphylococcal nuclease domain-containing protein 1; staphylococcal
nuclease OB fold, tudor domain, cytoplasm, HOST-virus
interaction, nucleus; HET: CIT; 1.90A {Homo sapiens}
Length = 570
Score = 65.3 bits (158), Expect = 2e-14
Identities = 23/67 (34%), Positives = 33/67 (49%), Gaps = 4/67 (5%)
Query: 2 GGWFRAQILAVDVVNASCQVKFVDYGGYLTLETSALRQIRADFLS--LPFQAIECGLANI 59
G W+RA++ V+ A V ++DYG L ++ L + F + LP QA E A I
Sbjct: 425 GEWYRARVEKVES-PAKIHVFYIDYGNREVLPSTRLGTLSPAFSTRVLPAQATEYAFAFI 483
Query: 60 -VPVGTD 65
VP D
Sbjct: 484 QVPQDDD 490
>3pnw_C Tudor domain-containing protein 3; FAB, structural genomics
consortium, antibody, SGC, protein immune system
complex; 2.05A {Homo sapiens}
Length = 77
Score = 53.3 bits (128), Expect = 2e-11
Identities = 12/45 (26%), Positives = 24/45 (53%)
Query: 2 GGWFRAQILAVDVVNASCQVKFVDYGGYLTLETSALRQIRADFLS 46
++RA++ A+ + VKF+DYG Y + S ++ I+ +
Sbjct: 32 NKFYRAEVEALHSSGMTAVVKFIDYGNYEEVLLSNIKPIQTEAWE 76
>2d9t_A Tudor domain-containing protein 3; structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Mus musculus} SCOP: b.34.9.1
Length = 78
Score = 49.5 bits (118), Expect = 6e-10
Identities = 11/47 (23%), Positives = 23/47 (48%)
Query: 2 GGWFRAQILAVDVVNASCQVKFVDYGGYLTLETSALRQIRADFLSLP 48
++RA++ A+ + VKF DYG Y + S ++ ++ +
Sbjct: 24 NKFYRAEVEALHSSGMTAVVKFTDYGNYEEVLLSNIKPVQTEAWVRD 70
>2hqx_A P100 CO-activator tudor domain; human P100 tudor domain,
proteolytic fragment, PSI, structural genomics; 1.42A
{Homo sapiens} SCOP: b.34.9.1 PDB: 2hqe_A 3omc_A*
3omg_A* 2o4x_A 2e6n_A 2o4x_B
Length = 246
Score = 52.0 bits (124), Expect = 7e-10
Identities = 20/62 (32%), Positives = 30/62 (48%), Gaps = 3/62 (4%)
Query: 2 GGWFRAQILAVDVVNASCQVKFVDYGGYLTLETSALRQIRADFLS--LPFQAIECGLANI 59
G W+RA++ V+ A V ++DYG L ++ L + F + LP QA E A I
Sbjct: 79 GEWYRARVEKVES-PAKIHVFYIDYGNREVLPSTRLGTLSPAFSTRVLPAQATEYAFAFI 137
Query: 60 VP 61
Sbjct: 138 QV 139
>2wac_A CG7008-PA; unknown function, tudor, beta-barrel, nuclease domain,
tudor P100, SND1, methylated arginine, SDMA, splicing;
2.10A {Drosophila melanogaster}
Length = 218
Score = 50.9 bits (121), Expect = 1e-09
Identities = 18/60 (30%), Positives = 28/60 (46%), Gaps = 2/60 (3%)
Query: 2 GGWFRAQILAVDVVNASCQVKFVDYGGYLTLETSALRQIRADFLSLPFQAIECGLANIVP 61
W+RA++ V ++ V ++DYG TL T+ L + F S A E LA +
Sbjct: 66 NQWYRAKVERVQ--GSNATVLYIDYGNKETLPTNRLAALPPAFSSEKPYATEYALALVAL 123
>3s6w_A Tudor domain-containing protein 3; methylated arginine recognize,
ISO-propanol, transcri; 1.78A {Homo sapiens} PDB:
3pmt_A*
Length = 54
Score = 44.2 bits (105), Expect = 4e-08
Identities = 12/39 (30%), Positives = 22/39 (56%)
Query: 2 GGWFRAQILAVDVVNASCQVKFVDYGGYLTLETSALRQI 40
++RA++ A+ + VKF+DYG Y + S ++ I
Sbjct: 16 NKFYRAEVEALHSSGMTAVVKFIDYGNYEEVLLSNIKPI 54
>1g5v_A SurviVal motor neuron protein 1; mRNA processing, translation;
NMR {Homo sapiens} SCOP: b.34.9.1
Length = 88
Score = 43.4 bits (102), Expect = 2e-07
Identities = 11/52 (21%), Positives = 19/52 (36%)
Query: 2 GGWFRAQILAVDVVNASCQVKFVDYGGYLTLETSALRQIRADFLSLPFQAIE 53
G + A I ++D +C V + YG S L + + Q +
Sbjct: 25 GCIYPATIASIDFKRETCVVVYTGYGNREEQNLSDLLSPICEVANNIEQNAQ 76
>4a4f_A SurviVal of motor neuron-related-splicing factor; RNA binding
protein; HET: 2MR; NMR {Homo sapiens} PDB: 4a4h_A*
Length = 64
Score = 39.3 bits (92), Expect = 3e-06
Identities = 9/39 (23%), Positives = 16/39 (41%)
Query: 2 GGWFRAQILAVDVVNASCQVKFVDYGGYLTLETSALRQI 40
G + A+I +D N + + F YG L+ +
Sbjct: 23 GQCYEAEIEEIDEENGTAAITFAGYGNAEVTPLLNLKPV 61
>1mhn_A SurviVal motor neuron protein; SMN, SMA, spinal muscular atrophy,
RNA binding protein; 1.80A {Homo sapiens} SCOP:
b.34.9.1 PDB: 4a4e_A* 4a4g_A*
Length = 59
Score = 38.6 bits (90), Expect = 6e-06
Identities = 10/42 (23%), Positives = 16/42 (38%)
Query: 2 GGWFRAQILAVDVVNASCQVKFVDYGGYLTLETSALRQIRAD 43
G + A I ++D +C V + YG S L +
Sbjct: 18 GCIYPATIASIDFKRETCVVVYTGYGNREEQNLSDLLSPICE 59
>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 = 0.072
Identities = 17/81 (20%), Positives = 29/81 (35%), Gaps = 12/81 (14%)
Query: 1 MGGWFRAQILAVDVVNASCQVKFVDYGGY-LTLETSALRQIRADFLSLPFQAIECGLANI 59
+ G +A+DV + +D+ + L L+ + + Q + L I
Sbjct: 158 VLG-SGKTWVALDVCLSYKVQCKMDFKIFWLNLK----NCNSPETVLEMLQKL---LYQI 209
Query: 60 VPVGT---DGEYNIILIVERI 77
P T D NI L + I
Sbjct: 210 DPNWTSRSDHSSNIKLRIHSI 230
Score = 25.2 bits (54), Expect = 2.8
Identities = 9/62 (14%), Positives = 20/62 (32%), Gaps = 12/62 (19%)
Query: 5 FRAQILA-------VDVVNASCQVKFVDYGGYLTLETSALRQIRADFL-----SLPFQAI 52
+IL D ++A+ +TL ++ + +L LP + +
Sbjct: 264 LSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVL 323
Query: 53 EC 54
Sbjct: 324 TT 325
>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 = 29.2 bits (65), Expect = 0.11
Identities = 10/42 (23%), Positives = 16/42 (38%), Gaps = 12/42 (28%)
Query: 30 LTLETSALRQIRADFLSLPFQAIECG--LANIVPVGTDGEYN 69
+E +A +++ L +P A G L GEY
Sbjct: 1737 TLMEKAAFEDLKSKGL-IPADATFAGHSL---------GEYA 1768
Score = 27.7 bits (61), Expect = 0.40
Identities = 12/44 (27%), Positives = 18/44 (40%), Gaps = 4/44 (9%)
Query: 29 YLTLETSALRQIRADFLSLPFQAIECGLANIVPV----GTDGEY 68
Y+T A R S F+A+ G A +V + G +Y
Sbjct: 126 YITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDY 169
>3qfe_A Putative dihydrodipicolinate synthase family PROT; seattle
structural genomics center for infectious disease, S
coccidioides, valley fever; 2.35A {Coccidioides
immitis}
Length = 318
Score = 26.1 bits (58), Expect = 1.1
Identities = 6/16 (37%), Positives = 9/16 (56%)
Query: 52 IECGLANIVPVGTDGE 67
GL +V +GT+ E
Sbjct: 42 ARSGLTGLVILGTNAE 57
>4dfk_A DNA polymerase I, thermostable; DNA polymerase, transferase-DNA
complex; HET: DNA DOC 0L5; 1.65A {Thermus aquaticus}
PDB: 1jxe_A* 3ktq_A* 3lwl_A* 3lwm_A* 3m8s_A* 3m8r_A*
3oju_A* 3rr7_A* 3rr8_A* 3rrg_A* 3ojs_A* 3t3f_A* 4df4_A*
4df8_A* 4dfj_A* 3rrh_A* 4dfm_A* 4dfp_A* 1ktq_A* 5ktq_A*
...
Length = 540
Score = 26.0 bits (58), Expect = 1.1
Identities = 5/36 (13%), Positives = 11/36 (30%)
Query: 32 LETSALRQIRADFLSLPFQAIECGLANIVPVGTDGE 67
LE + F+ E A+++ +
Sbjct: 2 LEEAPWPPPEGAFVGFVLSRKEPMWADLLALAAARG 37
>2rfg_A Dihydrodipicolinate synthase; beta barrel, amino-acid
biosynthesis, diaminopimelate biosyn lyase, lysine
biosynthesis, schiff base; 1.50A {Hahella chejuensis}
Length = 297
Score = 25.9 bits (58), Expect = 1.3
Identities = 9/16 (56%), Positives = 11/16 (68%)
Query: 52 IECGLANIVPVGTDGE 67
I+ G +VPVGT GE
Sbjct: 31 IKHGAHGLVPVGTTGE 46
>2vc6_A MOSA, dihydrodipicolinate synthase; DHDPS, TIM barrel, schiff
base, lyase; HET: MCL; 1.95A {Sinorhizobium meliloti}
Length = 292
Score = 25.7 bits (57), Expect = 1.7
Identities = 10/19 (52%), Positives = 12/19 (63%), Gaps = 1/19 (5%)
Query: 49 FQAIECGLANIVPVGTDGE 67
+Q IE G +VP GT GE
Sbjct: 29 WQ-IEEGSFGLVPCGTTGE 46
>2r8w_A AGR_C_1641P; APC7498, dihydrodipicolinate synthase, agrobacterium
tumefac C58, structural genomics, PSI-2; HET: MSE;
1.80A {Agrobacterium tumefaciens str}
Length = 332
Score = 25.7 bits (57), Expect = 1.9
Identities = 3/17 (17%), Positives = 8/17 (47%)
Query: 52 IECGLANIVPVGTDGEY 68
+ ++ +G+ G Y
Sbjct: 65 DAAEVDSVGILGSTGIY 81
>3si9_A DHDPS, dihydrodipicolinate synthase; structural genomics, seattle
structural genomics center for infectious disease,
ssgcid, TIM barrel; 2.10A {Bartonella henselae}
Length = 315
Score = 25.2 bits (56), Expect = 2.1
Identities = 8/16 (50%), Positives = 10/16 (62%)
Query: 52 IECGLANIVPVGTDGE 67
I G+ + PVGT GE
Sbjct: 53 ITQGINGVSPVGTTGE 68
>2ojp_A DHDPS, dihydrodipicolinate synthase; dimer, lysine biosynthe
lyase; HET: KGC GOL; 1.70A {Escherichia coli} PDB:
1yxc_A 1dhp_A 1yxd_A* 2ats_A* 3du0_A* 3c0j_A* 3ubs_A*
4eou_A* 3i7q_A* 3i7r_A* 3i7s_A* 2pur_A* 1s5v_A 1s5w_A
1s5t_A 3den_A* 2a6l_A 2a6n_A 3g0s_A
Length = 292
Score = 25.3 bits (56), Expect = 2.2
Identities = 8/16 (50%), Positives = 10/16 (62%)
Query: 52 IECGLANIVPVGTDGE 67
+ G + IV VGT GE
Sbjct: 32 VASGTSAIVSVGTTGE 47
>3qze_A DHDPS, dihydrodipicolinate synthase; alpha beta barrel,
cytoplasmic; 1.59A {Pseudomonas aeruginosa} PDB:
3puo_A* 3noe_A 3ps7_A* 3s8h_A
Length = 314
Score = 25.2 bits (56), Expect = 2.2
Identities = 8/16 (50%), Positives = 10/16 (62%)
Query: 52 IECGLANIVPVGTDGE 67
++ G IV VGT GE
Sbjct: 54 LQEGTNAIVAVGTTGE 69
>3e96_A Dihydrodipicolinate synthase; structural genomics, nysgrc, target
9375C, operon, PSI-2; 1.80A {Bacillus clausii ksm-k16}
Length = 316
Score = 25.2 bits (56), Expect = 2.4
Identities = 6/16 (37%), Positives = 9/16 (56%)
Query: 52 IECGLANIVPVGTDGE 67
++ G+ IVP G E
Sbjct: 43 VDNGIDVIVPCGNTSE 58
>3tak_A DHDPS, dihydrodipicolinate synthase; TIM barrel, lysine
biosynthesis, pyruvate, lyase; 1.42A {Acinetobacter
baumannii} PDB: 3pud_A* 3pue_A* 3pul_A 3rk8_A 3tce_A*
3tdf_A 3u8g_A 3uqn_A 4dxv_A
Length = 291
Score = 25.2 bits (56), Expect = 2.6
Identities = 10/16 (62%), Positives = 11/16 (68%)
Query: 52 IECGLANIVPVGTDGE 67
IE G +IV VGT GE
Sbjct: 32 IEQGTNSIVAVGTTGE 47
>3m5v_A DHDPS, dihydrodipicolinate synthase; TIM barrel, csgid,
amino-acid biosynthesis, diaminopimelate biosynthesis,
lyase, lysine biosynthesis; HET: MSE; 1.80A
{Campylobacter jejuni} PDB: 3ler_A*
Length = 301
Score = 25.2 bits (56), Expect = 2.7
Identities = 11/19 (57%), Positives = 13/19 (68%), Gaps = 1/19 (5%)
Query: 49 FQAIECGLANIVPVGTDGE 67
Q IE G+ +VPVGT GE
Sbjct: 36 RQ-IENGIDAVVPVGTTGE 53
>3flu_A DHDPS, dihydrodipicolinate synthase; TIM barrel,
beta-alpha-barrel, amino-acid biosynthesis,
diaminopimelate biosynthesis; 2.00A {Neisseria
meningitidis serogroup B}
Length = 297
Score = 25.2 bits (56), Expect = 2.9
Identities = 10/16 (62%), Positives = 10/16 (62%)
Query: 52 IECGLANIVPVGTDGE 67
IE G IV VGT GE
Sbjct: 38 IENGTDGIVAVGTTGE 53
>3fcy_A Xylan esterase 1; alpha/beta hydrolase, carbohydrate esterase, CE7;
2.10A {Thermoanaerobacterium SP}
Length = 346
Score = 24.8 bits (54), Expect = 3.1
Identities = 14/58 (24%), Positives = 20/58 (34%), Gaps = 12/58 (20%)
Query: 4 WFRAQIL-AVDVVNASCQVKFVD----------YGGYLTLETSAL-RQIRADFLSLPF 49
FR L + + VD GG L+L +AL ++R PF
Sbjct: 176 LFRHIFLDTAQLAGIVMNMPEVDEDRVGVMGPSQGGGLSLACAALEPRVRKVVSEYPF 233
>2hmc_A AGR_L_411P, dihydrodipicolinate synthase; alpha-beta barrel (TIM
barrel), structural genomics, PSI-2, structure
initiative; HET: MSE; 1.90A {Agrobacterium tumefaciens
str}
Length = 344
Score = 25.0 bits (55), Expect = 3.2
Identities = 5/16 (31%), Positives = 10/16 (62%)
Query: 52 IECGLANIVPVGTDGE 67
I G++ +V G+ G+
Sbjct: 57 IADGMSAVVYCGSMGD 72
>3a5f_A Dihydrodipicolinate synthase; TIM barrel, enzyme, amino-acid
biosynthesis, cytoplasm, diaminopimelate biosynthesis,
lyase; HET: KPI; 1.19A {Clostridium botulinum A} PDB:
3bi8_A* 3ird_A*
Length = 291
Score = 25.0 bits (55), Expect = 3.4
Identities = 6/16 (37%), Positives = 8/16 (50%)
Query: 52 IECGLANIVPVGTDGE 67
I+ I+ GT GE
Sbjct: 32 IKSKTDAIIVCGTTGE 47
>2yxg_A DHDPS, dihydrodipicolinate synthase; MJ0244, TIM
beta/alpha-barrel fold, structural genomics, NPPSFA;
2.20A {Methanocaldococcus jannaschii DSM2661}
Length = 289
Score = 24.8 bits (55), Expect = 3.5
Identities = 10/16 (62%), Positives = 12/16 (75%)
Query: 52 IECGLANIVPVGTDGE 67
IE G++ IV VGT GE
Sbjct: 31 IENGVSGIVAVGTTGE 46
>1o5k_A DHDPS, dihydrodipicolinate synthase; TM1521, structural genomics,
J protein structure initiative, joint center for
structural G lyase; HET: MCL; 1.80A {Thermotoga
maritima} SCOP: c.1.10.1 PDB: 3pb2_A 3pb0_A
Length = 306
Score = 24.6 bits (54), Expect = 3.5
Identities = 6/16 (37%), Positives = 11/16 (68%)
Query: 52 IECGLANIVPVGTDGE 67
+E G+ ++ +GT GE
Sbjct: 43 LENGVNALIVLGTTGE 58
>2v9d_A YAGE; dihydrodipicolinic acid synthase, N-acetyl neuraminate
lyase, NAL, lyase, DHDPS, prophage; 2.15A {Escherichia
coli} PDB: 2v8z_A 3nev_A* 3n2x_A*
Length = 343
Score = 24.9 bits (55), Expect = 3.5
Identities = 5/16 (31%), Positives = 10/16 (62%)
Query: 52 IECGLANIVPVGTDGE 67
I+ G+ + +G+ GE
Sbjct: 62 IKAGVDGLFFLGSGGE 77
>3daq_A DHDPS, dihydrodipicolinate synthase; lysine biosynthesis,
amino-ACI biosynthesis, diaminopimelate biosynthesis,
lyase, schiff B; 1.45A {Staphylococcus aureus} PDB:
3di1_A 3di0_A
Length = 292
Score = 24.8 bits (55), Expect = 3.6
Identities = 5/16 (31%), Positives = 7/16 (43%)
Query: 52 IECGLANIVPVGTDGE 67
+E I+ GT E
Sbjct: 33 LENNAQAIIVNGTTAE 48
>3eb2_A Putative dihydrodipicolinate synthetase; lysine biosynthesis,
pyruvate, TIM barrel, NYSGXRC, PSI2., structural
genomics; HET: PGE; 2.04A {Rhodopseudomonas palustris}
Length = 300
Score = 24.8 bits (55), Expect = 3.6
Identities = 6/16 (37%), Positives = 11/16 (68%)
Query: 52 IECGLANIVPVGTDGE 67
I+ G+ + P+G+ GE
Sbjct: 35 IQAGVHGLTPLGSTGE 50
>3d0c_A Dihydrodipicolinate synthase; lysine biosynthesis, pyruvate, TIM
barrel, NYSGXRC, PSI-2, structural genomics; 1.90A
{Oceanobacillus iheyensis HTE831}
Length = 314
Score = 24.8 bits (55), Expect = 3.7
Identities = 7/16 (43%), Positives = 10/16 (62%)
Query: 52 IECGLANIVPVGTDGE 67
++ G+ IVP G GE
Sbjct: 43 LQNGIEVIVPNGNTGE 58
>4dpp_A DHDPS 2, dihydrodipicolinate synthase 2, chloroplastic; amino-acid
biosynthesis, (S)-lysine biosynthesis VIA DAP PAT
(beta/alpha)8-barrel; 2.00A {Arabidopsis thaliana} PDB:
4dpq_A*
Length = 360
Score = 24.6 bits (54), Expect = 3.7
Identities = 6/16 (37%), Positives = 9/16 (56%)
Query: 52 IECGLANIVPVGTDGE 67
I+ G ++ GT GE
Sbjct: 90 IQNGAEGVIVGGTTGE 105
>2ehh_A DHDPS, dihydrodipicolinate synthase; structural genomics, NPPSFA,
national project on protein structural and functional
analyses; 1.90A {Aquifex aeolicus}
Length = 294
Score = 24.8 bits (55), Expect = 3.8
Identities = 6/16 (37%), Positives = 9/16 (56%)
Query: 52 IECGLANIVPVGTDGE 67
++ G I+ GT GE
Sbjct: 31 VDNGTDAILVCGTTGE 46
>2wkj_A N-acetylneuraminate lyase; directed evolution, sialic acid
mimetics, aldolase, S base, carbohydrate metabolism,
N-acetylneuraminic acid LYAS; HET: KPI PYR; 1.45A
{Escherichia coli} PDB: 2wnq_A 2xfw_A* 2wpb_A* 2wnz_A*
2ygy_A* 2wo5_A* 2wnn_A* 3lbm_A 3lbc_A 3lcf_A 3lcl_A
3lcg_A 3lch_A 3lci_A 1hl2_A 1fdy_A 1fdz_A 1nal_1 3lcx_A
3lcw_A
Length = 303
Score = 24.7 bits (54), Expect = 3.8
Identities = 5/16 (31%), Positives = 9/16 (56%)
Query: 52 IECGLANIVPVGTDGE 67
I+ G+ + G+ GE
Sbjct: 42 IQQGIDGLYVGGSTGE 57
>3s5o_A 4-hydroxy-2-oxoglutarate aldolase, mitochondrial; beta barrel,
schiff base, hydroxyproline metabolis; HET: KPI; 1.97A
{Homo sapiens} PDB: 3s5n_A
Length = 307
Score = 24.6 bits (54), Expect = 3.8
Identities = 4/17 (23%), Positives = 7/17 (41%)
Query: 52 IECGLANIVPVGTDGEY 68
V G++GE+
Sbjct: 45 GTFPFRGFVVQGSNGEF 61
>3na8_A Putative dihydrodipicolinate synthetase; lyase; HET: MSE; 1.85A
{Pseudomonas aeruginosa}
Length = 315
Score = 24.4 bits (54), Expect = 4.3
Identities = 7/16 (43%), Positives = 11/16 (68%)
Query: 52 IECGLANIVPVGTDGE 67
I+ G+ I P+G+ GE
Sbjct: 55 IDGGVHAIAPLGSTGE 70
>3dz1_A Dihydrodipicolinate synthase; lysine biosynthesis, pyruvate, TIM
barrel, NYSGXRC, PSI2, structural genomics; 1.87A
{Rhodopseudomonas palustris}
Length = 313
Score = 24.5 bits (54), Expect = 4.4
Identities = 5/16 (31%), Positives = 7/16 (43%)
Query: 52 IECGLANIVPVGTDGE 67
E G + +G GE
Sbjct: 39 AEVGCEGVTVLGILGE 54
>3b4u_A Dihydrodipicolinate synthase; structural genomics, PSI-2, MC
protein structure initiative, midwest center for
structural genomics; 1.20A {Agrobacterium tumefaciens
str}
Length = 294
Score = 24.5 bits (54), Expect = 4.9
Identities = 5/16 (31%), Positives = 8/16 (50%)
Query: 52 IECGLANIVPVGTDGE 67
+ G ++ GT GE
Sbjct: 34 LSNGCDSVTLFGTTGE 49
>3kfl_A Methionyl-tRNA synthetase; parasite, aminoacyl-tRNA synthetase,
tRNA ligase metrs, methionine, translation, ATP-binding;
HET: ME8; 2.00A {Leishmania major}
Length = 564
Score = 24.6 bits (54), Expect = 4.9
Identities = 5/21 (23%), Positives = 10/21 (47%)
Query: 60 VPVGTDGEYNIILIVERIGKD 80
DG+Y+ +V R+ +
Sbjct: 370 SNFQDDGDYSDKNMVARLNGE 390
>2csx_A Methionyl-tRNA synthetase; ligase, riken structural
genomics/proteomics initiative, RSGI, structural
genomics, ligase/RNA complex; 2.70A {Aquifex aeolicus}
PDB: 2ct8_A*
Length = 497
Score = 24.1 bits (53), Expect = 6.0
Identities = 8/21 (38%), Positives = 13/21 (61%)
Query: 60 VPVGTDGEYNIILIVERIGKD 80
VP G DG+++ I+ RI +
Sbjct: 326 VPFGQDGDFSKKAILNRINGE 346
>1xky_A Dihydrodipicolinate synthase; TIM barrel, , lysine
biosynthesis;spine, lyase; 1.94A {Bacillus anthracis}
SCOP: c.1.10.1 PDB: 1xl9_A 3hij_A*
Length = 301
Score = 24.0 bits (53), Expect = 6.0
Identities = 8/16 (50%), Positives = 9/16 (56%)
Query: 52 IECGLANIVPVGTDGE 67
I+ G IV GT GE
Sbjct: 43 IDNGTTAIVVGGTTGE 58
>4dlp_A Aminoacyl-tRNA synthetase, class I:aminoacyl-tRNA synthetase, class
IA:methionyl-tRNA...; structural genomics; 2.65A
{Brucella melitensis biovar abortus 230ORGANISM_TAXID}
Length = 536
Score = 24.2 bits (53), Expect = 6.7
Identities = 10/21 (47%), Positives = 11/21 (52%)
Query: 60 VPVGTDGEYNIILIVERIGKD 80
VP G DG Y+ IV R D
Sbjct: 352 VPFGQDGSYSHEAIVNRTNAD 372
>2r91_A 2-keto-3-deoxy-(6-phospho-)gluconate aldolase; TIM barrel,
thermophilic, lyase; 2.00A {Thermoproteus tenax} PDB:
2r94_A
Length = 286
Score = 24.0 bits (53), Expect = 7.1
Identities = 4/16 (25%), Positives = 6/16 (37%)
Query: 52 IECGLANIVPVGTDGE 67
G+ + GT G
Sbjct: 29 TSKGVDVVFVAGTTGL 44
>2d5b_A Methionyl-tRNA synthetase; rossmann fold, class 1A AARS, isomerase,
structural genomics, NPPSFA; 1.80A {Thermus
thermophilus} SCOP: a.27.1.1 c.26.1.1 PDB: 1woy_A 1a8h_A
2d54_A
Length = 500
Score = 24.1 bits (53), Expect = 7.2
Identities = 5/21 (23%), Positives = 8/21 (38%)
Query: 60 VPVGTDGEYNIILIVERIGKD 80
+P G D + + R D
Sbjct: 328 IPYGQDTPVSEEALRTRYEAD 348
>2x1l_A Methionyl-tRNA synthetase; nucleotide-binding, protein
biosynthesis, ligase, aminoacyl- synthetase; HET: ADN
CXS; 2.30A {Mycobacterium smegmatis} PDB: 2x1m_A*
Length = 524
Score = 23.8 bits (52), Expect = 7.4
Identities = 10/21 (47%), Positives = 12/21 (57%)
Query: 60 VPVGTDGEYNIILIVERIGKD 80
VP G DG YN I+ R+ D
Sbjct: 341 VPFGQDGSYNEDAIIGRVNAD 361
>1w3i_A EDA, 2-keto-3-deoxy gluconate aldolase; archaeal metabolism,
pyruvate; 1.7A {Sulfolobus solfataricus} SCOP: c.1.10.1
PDB: 1w37_A 1w3n_A* 1w3t_A* 2yda_A*
Length = 293
Score = 23.7 bits (52), Expect = 7.6
Identities = 5/16 (31%), Positives = 7/16 (43%)
Query: 52 IECGLANIVPVGTDGE 67
I G+ + GT G
Sbjct: 30 IRKGIDKLFVNGTTGL 45
>2pcq_A Putative dihydrodipicolinate synthase; lyase, lysine
biosynthesis, dihydrodipicoliante, S genomics, NPPSFA;
2.10A {Thermus thermophilus}
Length = 283
Score = 23.6 bits (52), Expect = 7.8
Identities = 4/16 (25%), Positives = 10/16 (62%)
Query: 52 IECGLANIVPVGTDGE 67
+E + ++ G++GE
Sbjct: 28 LEPLVDGLLVYGSNGE 43
>3cpr_A Dihydrodipicolinate synthetase; (beta/alpha)8-barrel fold with A
C-terminal alpha-helical segment, amino-acid
biosynthesis, cytoplasm; HET: MCL; 2.20A
{Corynebacterium glutamicum}
Length = 304
Score = 23.9 bits (52), Expect = 8.1
Identities = 11/32 (34%), Positives = 18/32 (56%), Gaps = 7/32 (21%)
Query: 36 ALRQIRADFLSLPFQAIECGLANIVPVGTDGE 67
A R++ A +L ++ GL ++V GT GE
Sbjct: 38 AGREV-AAYL------VDKGLDSLVLAGTTGE 62
>3l21_A DHDPS, dihydrodipicolinate synthase; DAPA, dimer, RV2753C, lysine
biosynthesis, amino-acid biosynthesis, diaminopimelate
biosynthesis; HET: KPI CME; 2.10A {Mycobacterium
tuberculosis} PDB: 1xxx_A
Length = 304
Score = 23.5 bits (51), Expect = 9.7
Identities = 6/16 (37%), Positives = 9/16 (56%)
Query: 52 IECGLANIVPVGTDGE 67
++ G +V GT GE
Sbjct: 46 VDQGCDGLVVSGTTGE 61
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
0.325 0.144 0.431
Gapped
Lambda K H
0.267 0.0742 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,288,961
Number of extensions: 62870
Number of successful extensions: 224
Number of sequences better than 10.0: 1
Number of HSP's gapped: 216
Number of HSP's successfully gapped: 59
Length of query: 80
Length of database: 6,701,793
Length adjustment: 49
Effective length of query: 31
Effective length of database: 5,333,664
Effective search space: 165343584
Effective search space used: 165343584
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (23.4 bits)