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# Query Length Result vs. Range Score %id Covered by template(s)
1 gi|15604718|ref|NP_219502.1| hypothetical protein (CT875) [Chlamydia trachomatis D/UW-3/CX] 591 COG0113 541-588 -5.440 29  [K] KOG2652 RNA polymerase II transcription initiation factor TFIIA, large chain
PDB0113 544-588 -6.660 26  1rm1_C mol:protein length:286 Transcription initiation factor IIA large cha
PfamA26U 507-590 -7.920 10  PF08008.7; Q80KH7_CSIV/548-634; Viral cysteine rich
SCOP175 505-585 -8.240 22  d1wb8a1 a.2.11.1 (A:4-92) Fe superoxide dismutase (FeSOD) {Archaeon Sulfolobus solfataricus [TaxId: 2287]}
2 gi|15604719|ref|NP_219503.1| hypothetical protein (CT001) [Chlamydia trachomatis D/UW-3/CX] 90 COG0113 3-73 -44.000 24  [S] COG2155 Uncharacterized conserved protein
PDB0113 9-66 -7.730 17  3ukm_A mol:protein length:280 Potassium channel subfamily K member 1
PfamA26U 3-63 -35.900 21  PF04070.7; Q03RN7_LACBA/1-62; Domain of unknown function (DUF378 topsan)
SCOP175 3-57 -6.050 2  d2h8aa1 f.56.1.1 (A:9-147) Microsomal glutathione S-transferase 1 {Rat (Rattus norvegicus) [TaxId: 10116]}
3 gi|15604720|ref|NP_219504.1| aspartyl/glutamyl-tRNA amidotransferase subunit C (CT002) [Chlamydia trachomatis D/UW-3/CX] 100 COG0113 3-100 -56.200 21  [J] COG0721 Asp-tRNAAsn/Glu-tRNAGln amidotransferase C subunit
PDB0113 3-100 -57.300 26  2df4_C mol:protein length:100 Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransfer
PfamA26U 22-95 -40.300 30  PF02686.10; A1HME6_9FIRM/19-90; Glu-tRNAGln amidotransferase C subunit
SCOP175 5-98 -54.500 27  d2f2ac1 a.137.12.1 (C:3-94) Glu-tRNAGln amidotransferase C subunit, GatC {Staphylococcus aureus [TaxId: 1280]}
4 gi|15604721|ref|NP_219505.1| aspartyl/glutamyl-tRNA amidotransferase subunit A (CT003) [Chlamydia trachomatis D/UW-3/CX] 491 COG0113 1-480 -144.000 42  [J] COG0154 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases
PDB0113 1-481 -145.000 44  2df4_A mol:protein length:485 Glutamyl-tRNA(Gln) amidotransferase subunit A
PfamA26U 23-462 -139.000 100  PF01425.16; GATA_CHLTR/22-462; Amidase
SCOP175 1-485 -139.000 43  d2gi3a1 c.117.1.1 (A:1-475) Glutamyl-tRNA(Gln) amidotransferase subunit A {Thermotoga maritima [TaxId: 2336]}
5 gi|15604722|ref|NP_219506.1| aspartyl/glutamyl-tRNA amidotransferase subunit B (CT004) [Chlamydia trachomatis D/UW-3/CX] 488 COG0113 1-488 -167.000 38  [J] COG0064 Asp-tRNAAsn/Glu-tRNAGln amidotransferase B subunit (PET112 homolog)
PDB0113 6-487 -168.000 41  2df4_B mol:protein length:483 Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransfer
PfamA26U 9-299 -133.000 46  PF02934.10; Q09CR4_STIAD/56-342; GatB/GatE catalytic domain
336-485 -59.400 34  PF02637.13; GATB_BACC1/325-472; GatB domain
SCOP175 9-304 -135.000 48  d2f2ab2 d.128.1.5 (B:4-293) Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit B, GatB, N-terminal domain {Staphylococcus aureus [TaxId: 1280]}
305-411 -52.500 22  d2f2ab1 a.182.1.2 (B:294-400) Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit B, GatB, C-terminal domain {Staphylococcus aureus [TaxId: 1280]}
6 gi|15604723|ref|NP_219507.1| hypothetical protein (CT005) [Chlamydia trachomatis D/UW-3/CX] 363 COG0113 18-158 -12.900 15  [S] COG4854 Predicted membrane protein
PDB0113 40-125 -9.480 15  1zoy_D mol:protein length:103 Small cytochrome binding protein
PfamA26U 3-128 -13.100 13  PF05328.7; A7TLI2_VANPO/25-161; CybS
32-183 -10.900 15  PF10710.4; A7GUP0_BACCN/1-140; Protein of unknown function (DUF2512 topsan)
SCOP175 32-113 -7.480 14  d1nekd_ f.21.2.2 (D:) Succinate dehydrogenase subunit SdhD {Escherichia coli [TaxId: 562]}
7 gi|15604724|ref|NP_219508.1| hypothetical protein (CT006) [Chlamydia trachomatis D/UW-3/CX] 189 COG0113 131-189 -7.570 9  [S] KOG4852 Uncharacterized conserved protein
PDB0113 1-58 -6.970 7  3bb6_A mol:protein length:127 Uncharacterized protein yeaR
PfamA26U 15-97 -7.460 14  PF04217.8; A0XZK2_9GAMM/4-146; Protein of unknown function, DUF412 topsan
SCOP175 1-58 -6.190 7  d3bb6a1 b.82.2.13 (A:1-109) Uncharacterized protein YeaR {Escherichia coli [TaxId: 562]}
8 gi|15604725|ref|NP_219509.1| hypothetical protein (CT007) [Chlamydia trachomatis D/UW-3/CX] 316 COG0113 1-316 -16.400 11  [M] COG4571 Outer membrane protease
PDB0113 15-316 -16.300 9  3bry_A mol:protein length:441 TbuX
115-316 -19.500 8  2wjq_A mol:protein length:215 PROBABLE N-ACETYLNEURAMINIC ACID OUTER MEMBRA
PfamA26U 1-316 -18.700 13  PF09381.5; Q1RC46_ECOUT/18-318; Outer membrane protein G (OmpG)
SCOP175 12-316 -11.300 9  d1uynx_ f.4.5.1 (X:) Translocator domain of NalP {Neisseria meningitidis [TaxId: 487]}
61-316 -13.600 7  d1t16a_ f.4.3.4 (A:) Long-chain fatty acid transport protein FadL {Escherichia coli [TaxId: 562]}
9 gi|15604726|ref|NP_219510.1| ribonuclease HIII (CT008) [Chlamydia trachomatis D/UW-3/CX] 300 COG0113 4-299 -93.900 24  [L] COG1039 Ribonuclease HIII
PDB0113 2-300 -93.000 27  2d0a_A mol:protein length:310 ribonuclease HIII
PfamA26U 3-80 -23.600 18  PF11858.3; RNH3_STRTD/2-80; Domain of unknown function (DUF3378 topsan)
89-291 -87.300 27  PF01351.13; RNH3_BACSU/97-301; Ribonuclease HII
SCOP175 88-300 -68.000 23  d1ekea_ c.55.3.1 (A:) Class II ribonuclease H (RNase HII) {Archaeon Methanococcus jannaschii [TaxId: 2190]}
10 gi|15604727|ref|NP_219511.1| HTH transcriptional regulator (CT009) [Chlamydia trachomatis D/UW-3/CX] 143 COG0113 1-138 -46.400 24  [S] COG1426 Uncharacterized protein conserved in bacteria
PDB0113 9-143 -48.200 18  3fym_A mol:protein length:130 Putative uncharacterized protein
PfamA26U 15-76 -29.700 43  PF13413.1; C4XS50_DESMR/28-89; Helix-turn-helix domain
SCOP175 1-78 -14.400 19  d1dwka1 a.35.1.4 (A:1-86) Cyanase N-terminal domain {Escherichia coli [TaxId: 562]}
11 gi|15604728|ref|NP_219512.1| lipid A biosynthesis lauroyl acyltransferase (CT010) [Chlamydia trachomatis D/UW-3/CX] 455 COG0113 2-333 -79.600 19  [M] COG1560 Lauroyl/myristoyl acyltransferase
PDB0113 61-309 -8.830 10  1k30_A mol:protein length:368 glycerol-3-phosphate acyltransferase
PfamA26U 5-316 -80.800 16  PF03279.8; Q9ZGU3_ECO57/41-334; Bacterial lipid A biosynthesis acyltransferase
SCOP175 125-309 -8.860 11  d1iuqa_ c.112.1.1 (A:) Glycerol-3-phosphate (1)-acyltransferase {Cushaw squash (Cucurbita moschata) [TaxId: 3662]}
12 gi|15604729|ref|NP_219513.1| hypothetical protein (CT011) [Chlamydia trachomatis D/UW-3/CX] 418 COG0113 4-418 -48.200 9  [S] COG4856 Uncharacterized protein conserved in bacteria
PDB0113 29-149 -21.000 11  2kq1_A mol:protein length:119 BH0266 protein
131-232 -15.200 10  2kxy_A mol:protein length:100 Uncharacterized protein
PfamA26U 142-226 -18.400 16  PF07949.7; A3I735_9BACI/136-221; YbbR-like protein
SCOP175 314-418 -6.490 8  d1tlya_ f.4.6.1 (A:) Nucleoside-specific channel-forming protein tsx (NupA) {Escherichia coli [TaxId: 562]}
13 gi|15604730|ref|NP_219514.1| hypothetical protein (CT012) [Chlamydia trachomatis D/UW-3/CX] 264 COG0113 4-264 -98.900 32  [S] COG1624 Uncharacterized conserved protein
PDB0113 40-232 -79.500 31  2fb5_A mol:protein length:205 hypothetical Membrane Spanning Protein
83-263 -41.800 18  3c1y_A mol:protein length:377 DNA integrity scanning protein disA
PfamA26U 108-231 -67.700 40  PF02457.11; Q3A5V7_PELCD/115-236; DisA bacterial checkpoint controller nucleotide-binding
SCOP175 43-232 -78.200 32  d2fb5a1 d.320.1.1 (A:5-205) Hypothetical protein BC4920 (YojJ) {Bacillus cereus [TaxId: 1396]}
14 gi|15604731|ref|NP_219515.1| cytochrome d ubiquinol oxidase subunit I (CT013) [Chlamydia trachomatis D/UW-3/CX] 446 COG0113 1-445 -129.000 31  [C] COG1271 Cytochrome bd-type quinol oxidase, subunit 1
PDB0113 50-261 -6.380 16  1fx8_A mol:protein length:281 GLYCEROL UPTAKE FACILITATOR PROTEIN
PfamA26U 6-438 -138.000 37  PF01654.12; A7JZ36_VIBSE/8-437; Bacterial Cytochrome Ubiquinol Oxidase
SCOP175 50-261 -6.150 13  d1fx8a_ f.19.1.1 (A:) Glycerol uptake facilitator protein GlpF {Escherichia coli [TaxId: 562]}
15 gi|15604732|ref|NP_219516.1| cytochrome d ubiquinol oxidase subunit II (CT014) [Chlamydia trachomatis D/UW-3/CX] 353 COG0113 5-353 -114.000 29  [C] COG1294 Cytochrome bd-type quinol oxidase, subunit 2
PDB0113 9-133 -6.890 13  4axg_A mol:protein length:248 EUKARYOTIC TRANSLATION INITIATION FACTOR 4E
PfamA26U 8-344 -112.000 29  PF02322.10; A3S7Y8_9RHOB/5-325; Cytochrome oxidase subunit II
SCOP175 27-124 -6.150 18  d1wija_ a.140.5.1 (A:) Ethylene insensitive 3 (EIN3)-like protein 3, EIL3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}
16 gi|15604733|ref|NP_219517.1| ATPase (CT015) [Chlamydia trachomatis D/UW-3/CX] 434 COG0113 1-434 -110.000 29  [T] COG1875 Predicted ATPase related to phosphate starvation-inducible protein PhoH
PDB0113 2-140 -33.300 19  2dok_A mol:protein length:186 Telomerase-binding protein EST1A
101-401 -10.500 15  1w36_D mol:protein length:608 EXODEOXYRIBONUCLEASE V ALPHA CHAIN
222-432 -61.700 31  3b85_A mol:protein length:208 Phosphate starvation-inducible protein
PfamA26U 5-138 -45.400 23  PF13638.1; D2R0J2_PIRSD/11-151; PIN domain
222-432 -65.100 31  PF02562.11; A0LK93_SYNFM/124-328; PhoH-like protein
SCOP175 3-143 -12.200 19  d1o4wa_ c.120.1.1 (A:) Hypothetical protein AF0591 {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}
244-434 -14.500 15  d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}
17 gi|15604734|ref|NP_219518.1| hypothetical protein (CT016) [Chlamydia trachomatis D/UW-3/CX] 242 COG0113 10-165 -9.030 11  [M] COG3040 Bacterial lipocalin
PDB0113 10-165 -9.190 11  2aco_A mol:protein length:173 Outer membrane lipoprotein blc
PfamA26U 171-241 -8.730 18  PF14216.1; D4N473_9CAUD/44-133; Domain of unknown function (DUF4326 topsan)
SCOP175 134-231 -7.120 16  d1jpya_ g.17.1.6 (A:) Interleukin 17F, IL-17F {Human (Homo sapiens) [TaxId: 9606]}
18 gi|15604735|ref|NP_219519.1| hypothetical protein (CT017) [Chlamydia trachomatis D/UW-3/CX] 433 COG0113 14-429 -26.300 9  [M] COG0791 Cell wall-associated hydrolases (invasion-associated proteins)
18-165 -47.900 20  [S] COG3807 Uncharacterized protein conserved in bacteria
PDB0113 26-419 -44.200 10  3pvq_A mol:protein length:308 Dipeptidyl-peptidase VI
PfamA26U 42-96 -22.100 23  PF06347.8; Q8FXS3_BRUSU/49-105; Bacterial SH3 domain
327-420 -20.000 11  PF00877.14; P74160_SYNY3/112-245; NlpC/P60 family
SCOP175 22-114 -9.750 16  d1wiea_ b.34.2.1 (A:) RIM binding protein 2, RIMBP2 {Human (Homo sapiens) [TaxId: 9606]}
81-166 -10.700 14  d1udla_ b.34.2.1 (A:) Intersectin 2 (KIAA1256) {Human (Homo sapiens) [TaxId: 9606]}
303-420 -20.800 11  d2evra2 d.3.1.16 (A:87-234) Cell wall-associated hydrolase Spr C-terminal domain {Nostoc punctiforme [TaxId: 272131]}
19 gi|15604736|ref|NP_219520.1| hypothetical protein (CT018) [Chlamydia trachomatis D/UW-3/CX] 157 COG0113 1-115 -6.650 12  [H] COG0368 Cobalamin-5-phosphate synthase
PDB0113 21-157 -6.220 9  1xdk_B mol:protein length:303 Retinoic acid receptor, beta
PfamA26U 33-113 -7.650 14  PF06363.6; POLG_HPE23/1400-1499; Picornaviridae P3A protein
SCOP175 35-79 -6.160 18  d1jmab2 g.24.1.1 (B:60-105) Cellular receptor HveA {Human (Homo sapiens) [TaxId: 9606]}
20 gi|15604737|ref|NP_219521.1| isoleucyl-tRNA synthetase (CT019) [Chlamydia trachomatis D/UW-3/CX] (Range:1-500) 500 COG0113 1-482 -85.700 27  [J] COG0060 Isoleucyl-tRNA synthetase
PDB0113 5-500 -124.000 42  1ile_A mol:protein length:821 ISOLEUCYL-TRNA SYNTHETASE
PfamA26U 18-469 -49.100 22  PF00133.17; SYV_YEAST/156-780; tRNA synthetases class I (I, L, M and V)
SCOP175 5-500 -64.600 46  d1ilea3 c.26.1.1 (A:1-197,A:387-641) Isoleucyl-tRNA synthetase (IleRS) {Thermus thermophilus [TaxId: 274]}
202-384 -68.600 35  d1udza_ b.51.1.1 (A:) Isoleucyl-tRNA synthetase (IleRS) {Thermus thermophilus [TaxId: 274]}

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Selected papers from Godzik Lab
Ying Zhang, Ines Thiele, Dana Weekes, Zhanwen Li, Lukasz Jaroszewski, Krzysztof Ginalski, Ashley Deacon, John Wooley, Scott Lesley, Ian Wilson, Bernhard Palsson, Andrei Osterman, Adam Godzik. Three-Dimensional Structural View of the Central Metabolic Network of Thermotoga maritima. Science. 2009 Sep 18;325(5947):1544-9.

Doukhanina EV, Chen S, van der Zalm E, Godzik A, Reed J, Dickman MB. Identification and functional characterization of the BAG protein family inArabidopsis thaliana. Biol Chem. 2006 Jul 7;281(27):18793-801. Epub 2006 Apr 24.