RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2713
(143 letters)
>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase
(phospho), phosphatase, hydrolase (phosp glycolysis,
bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus}
SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A*
1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A
Length = 469
Score = 158 bits (400), Expect = 2e-47
Identities = 55/144 (38%), Positives = 79/144 (54%), Gaps = 4/144 (2%)
Query: 2 RQFT--PLVVALVGLPARGKTVLAHKLSRYLTWTDHKSKVFSVSAYRRKHLELYNSHDIF 59
T P ++ +VGLPARGKT ++ KL+RYL + ++ F+V YRR ++ Y S + F
Sbjct: 33 VCMTNCPTLIVMVGLPARGKTYISKKLTRYLNFIGVPTREFNVGQYRRDMVKTYKSFEFF 92
Query: 60 RVDNTEGYNIRQLSAREAQEDATKWLKND-GEVAIIDGTTATMEKRKQIHDYFARKMGFK 118
DN EG IR+ A A D K+L + G VA+ D T T E+R I ++ + G+K
Sbjct: 93 LPDNEEGLKIRKQCALAALNDVRKFLSEEGGHVAVFDATNTTRERRAMIFNFG-EQNGYK 151
Query: 119 VLFVELIVQDEEILEHNIKQSMCS 142
FVE I D E++ NI Q
Sbjct: 152 TFFVESICVDPEVIAANIVQVKLG 175
>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3
(6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...;
bifunctional enzyme, EDTA complex; HET: F6P EDT ADP;
2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B*
3qpu_A* 3qpv_A* 3qpw_A*
Length = 520
Score = 154 bits (389), Expect = 1e-45
Identities = 52/143 (36%), Positives = 82/143 (57%), Gaps = 2/143 (1%)
Query: 1 LRQFTPLVVALVGLPARGKTVLAHKLSRYLTWTDHKSKVFSVSAYRRKHLELYNSHDIFR 60
+P V+ +VGLPARGKT ++ KL+RYL W +KVF+V YRR+ ++ Y+S++ FR
Sbjct: 30 KLTNSPTVIVMVGLPARGKTYISKKLTRYLNWIGVPTKVFNVGEYRREAVKQYSSYNFFR 89
Query: 61 VDNTEGYNIRQLSAREAQEDATKWLKND-GEVAIIDGTTATMEKRKQIHDYFARKMGFKV 119
DN E +R+ A A D +L + G++A+ D T T E+R I + ++ FK
Sbjct: 90 PDNEEAMKVRKQCALAALRDVKSYLAKEGGQIAVFDATNTTRERRHMILHFA-KENDFKA 148
Query: 120 LFVELIVQDEEILEHNIKQSMCS 142
F+E + D ++ NI + S
Sbjct: 149 FFIESVCDDPTVVASNIMEVKIS 171
>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate
hydrolases fold, S genomics, joint center for structural
genomics, JCSG; HET: MSE; 1.70A {Chloroflexus
aurantiacus}
Length = 193
Score = 51.9 bits (124), Expect = 4e-09
Identities = 20/133 (15%), Positives = 47/133 (35%), Gaps = 12/133 (9%)
Query: 5 TPLVVALVGLPARGKTVLAHKLSRYLTWTDHKSKVFSVSAYRRKHLELYNSHDIFRVDNT 64
TP ++ + G PA GKT L+ L+ L + S A++ + D
Sbjct: 4 TPALIIVTGHPATGKTTLSQALATGLRLP-----LLSKDAFKEVMFDGLGWS-----DRE 53
Query: 65 EGYNIRQLSAREAQEDATKWLKNDGEVAIIDGTTATMEKRKQIHDYFARKMGFKVLFVEL 124
+ + A L++ G+ I++ +++ + F + +
Sbjct: 54 WSRRVGATAIMMLYHTAATILQS-GQSLIMESNFRVDLDTERMQN-LHTIAPFTPIQIRC 111
Query: 125 IVQDEEILEHNIK 137
+ + ++E +
Sbjct: 112 VASGDVLVERILS 124
>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding
motif, ATP- binding, nucleotide-binding, transferase;
HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB:
3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*
Length = 260
Score = 50.6 bits (121), Expect = 1e-08
Identities = 22/136 (16%), Positives = 49/136 (36%), Gaps = 16/136 (11%)
Query: 8 VVALVGLPARGKTVLAHKLSRYLTWTDHKSKVFSVSAYRRKHLELYNSHDIFRVDNTEGY 67
++ L GLP GK+ + L++ L+ + V S R+ ++
Sbjct: 6 LIILTGLPGVGKSTFSKNLAKILSKNNIDVIVLG-SDLIRESFPVWKEK----------- 53
Query: 68 NIRQLSAREAQEDATKWLKNDGEVAIIDGTTATMEKRKQIHDYFARKMGFKVLFVELIVQ 127
+ +++ + V I+D T R+ + + A+K + L
Sbjct: 54 --YEEFIKKSTYRLIDSALKNYWV-IVDDTNYYNSMRRDLINI-AKKYNKNYAIIYLKAS 109
Query: 128 DEEILEHNIKQSMCSP 143
+ ++ NI++ P
Sbjct: 110 LDVLIRRNIERGEKIP 125
>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A
{Enterobacteria phage T4} SCOP: c.37.1.1
Length = 181
Score = 49.4 bits (118), Expect = 2e-08
Identities = 23/132 (17%), Positives = 48/132 (36%), Gaps = 8/132 (6%)
Query: 6 PLVVALVGLPARGKTVLAHKLSRYLTWTDHKSKVFSVSAYRRKHLELYNSHDIFRVDNTE 65
++ +G P GK+ A + + + YR+ + + D ++ +
Sbjct: 2 KKIILTIGCPGSGKSTWAREFIA----KNPGFYNINRDDYRQS-IMAHEERDEYKYTKKK 56
Query: 66 GYNIRQLSAREAQEDATKWLKNDGEVAIIDGTTATMEKRKQIHDYFARKMGFKVLFVELI 125
+ + + + + V II T E+R FA++ G+KV
Sbjct: 57 EGIVTGM-QFDTAKSILYGGDSVKGV-IISDTNLNPERRLAWET-FAKEYGWKVEHKVFD 113
Query: 126 VQDEEILEHNIK 137
V E+++ N K
Sbjct: 114 VPWTELVKRNSK 125
>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop,
transferase; HET: ADP; 2.33A {Enterobacteria phage T4}
SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A*
2ia5_A
Length = 301
Score = 47.4 bits (112), Expect = 2e-07
Identities = 24/138 (17%), Positives = 44/138 (31%), Gaps = 20/138 (14%)
Query: 6 PLVVALVGLPARGKTVLAHKLSRYLTWTDHKSKVFSVSAYRRKHLELYNSHDIFRVDNTE 65
++ +G P GK+ A + + + YR+ I + +
Sbjct: 2 KKIILTIGCPGSGKSTWAREFIA----KNPGFYNINRDDYRQS---------IMAHEERD 48
Query: 66 GYNIRQLSAREAQEDATKWLK------NDGEVAIIDGTTATMEKRKQIHDYFARKMGFKV 119
Y + K + + II T E+R FA++ G+KV
Sbjct: 49 EYKYTKKKEGIVTGMQFDTAKSILYGGDSVKGVIISDTNLNPERRLAWET-FAKEYGWKV 107
Query: 120 LFVELIVQDEEILEHNIK 137
V E+++ N K
Sbjct: 108 EHKVFDVPWTELVKRNSK 125
>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL
helix motif, transcription regulator; 3.20A
{Streptococcus pneumoniae}
Length = 253
Score = 42.2 bits (98), Expect = 1e-05
Identities = 20/132 (15%), Positives = 45/132 (34%), Gaps = 7/132 (5%)
Query: 6 PLVVALVGLPARGKTVLAHKLSRYLTWTDHKSKVFSVSAYRRKHLELYNSHDIFRVDNTE 65
P+ + L G GKT + + ++R +H ++ + +
Sbjct: 32 PIAILLGGQSGAGKTTIHRIK---QKEFQGNIVIIDGDSFRSQHPHY---LELQQEYGKD 85
Query: 66 GYNIRQLSAREAQEDATKWLKNDGEVAIIDGTTATMEKRKQIHDYFARKMGFKVLFVELI 125
+ A + E L + G +I+GT T++ K+ + G++V +
Sbjct: 86 SVEYTKDFAGKMVESLVTKLSSLGYNLLIEGTLRTVDVPKKTAQLL-KNKGYEVQLALIA 144
Query: 126 VQDEEILEHNIK 137
+ E +
Sbjct: 145 TKPELSYLSTLI 156
>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 = 41.0 bits (95), Expect = 5e-05
Identities = 23/150 (15%), Positives = 42/150 (28%), Gaps = 36/150 (24%)
Query: 1 LRQFTP-LVVALVGLPARGKTVLAHKLSRYLTWTDHKSKVFSVSAYRRKHLELYNSHDIF 59
L + P V + G+ GKT +A + ++ IF
Sbjct: 144 LLELRPAKNVLIDGVLGSGKTWVA------------------LDVCLSYKVQCKMDFKIF 185
Query: 60 ----RVDNTEGYNIRQLSAREAQEDATKWLKNDGEVAIIDGTTATMEKRKQIHDYFARKM 115
+ N+ + L Q D ++D I + ++ K
Sbjct: 186 WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIH---SIQAELRRLLKSKP 242
Query: 116 GFKVLFVELI---VQDEEILEH-NIKQSMC 141
L L+ VQ+ + N+ C
Sbjct: 243 YENCL---LVLLNVQNAKAWNAFNLS---C 266
Score = 33.7 bits (76), Expect = 0.015
Identities = 22/164 (13%), Positives = 50/164 (30%), Gaps = 56/164 (34%)
Query: 6 PLVVALVGLPARGKTVLAHKLSRYLTW----TDHKSKVFSVSAYRRKHLE------LYNS 55
P ++++ + L+ + W D + + S LE +++
Sbjct: 327 PRRLSIIA------ESIRDGLATWDNWKHVNCDKLTTIIESSL---NVLEPAEYRKMFDR 377
Query: 56 HDIFRVDNTEGYNI---------RQLSAREAQEDATKWLKNDGEVAIIDGTTATMEKRKQ 106
+F +I + + K K ++++ E
Sbjct: 378 LSVFP----PSAHIPTILLSLIWFDVIKSDVMVVVNKLHKY----SLVEKQPK--ESTIS 427
Query: 107 IHDYFARKMGFKVLFVELIVQDEE-------ILEH-NIKQSMCS 142
I +++EL V+ E I++H NI ++ S
Sbjct: 428 IPS----------IYLELKVKLENEYALHRSIVDHYNIPKTFDS 461
Score = 27.9 bits (61), Expect = 1.3
Identities = 26/119 (21%), Positives = 43/119 (36%), Gaps = 20/119 (16%)
Query: 33 TDHKSKVFSVSAYRRKHLELYNSHDIFRVDNTEGYNIRQLSAREAQEDATKWLKNDGEVA 92
T+ + Y + LYN + +F YN+ +L A L+ V
Sbjct: 100 TEQRQPSMMTRMYIEQRDRLYNDNQVFA-----KYNVSRLQPYLKLRQALLELRPAKNV- 153
Query: 93 IIDG------TTATMEKRKQIHDY-FARKMGFKVLFVEL--IVQDEEILEHNIKQSMCS 142
+IDG T ++ Y KM FK+ ++ L E +LE + Q +
Sbjct: 154 LIDGVLGSGKTWVALD---VCLSYKVQCKMDFKIFWLNLKNCNSPETVLE--MLQKLLY 207
Score = 27.9 bits (61), Expect = 1.4
Identities = 22/152 (14%), Positives = 47/152 (30%), Gaps = 37/152 (24%)
Query: 27 SRYLTWTDHKSKVFSVSAYRRKHLELYNSHDIFRVDNTEGY-----NIR-QLSAREA--- 77
+ L T K +SA H+ L + D + + R Q RE
Sbjct: 266 CKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTT 325
Query: 78 ------------QEDATKW-----LKNDGEVAIIDGTTATMEKR--KQIHDYFA--RK-- 114
++ W + D II+ + +E +++ D +
Sbjct: 326 NPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSA 385
Query: 115 ----MGFKVLFVELIVQD-EEILEHNIKQSMC 141
+ +++ ++I D ++ K S+
Sbjct: 386 HIPTILLSLIWFDVIKSDVMVVVNKLHKYSLV 417
>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase,
antibiotic resistance, phosphorylation, mononucleoti
binding fold; HET: ATP; 2.50A {Streptomyces venezuelae}
SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A*
1qhy_A*
Length = 178
Score = 37.1 bits (85), Expect = 6e-04
Identities = 18/136 (13%), Positives = 36/136 (26%), Gaps = 2/136 (1%)
Query: 8 VVALVGLPARGKTVLAHKLSRYLTWTDHKSKVFSVSAYRRKHLELYNSHDIFRVDNTEGY 67
++ L G + GK+ + L L V S+ ++ F D
Sbjct: 5 MIILNGGSSAGKSGIVRCLQSVLPEPWLAFGVDSLIEAMPLKMQSAEGGIEFDADGGVSI 64
Query: 68 NIRQLSAREAQEDATKWLKNDGEVAIIDGTTATMEKRKQIHDYFARKMGFKVLFVELIVQ 127
+ A + + G IID ++ + + VL+V +
Sbjct: 65 GPEFRALEGAWAEGVVAMARAGARIIIDDVFLGGAAAQE--RWRSFVGDLDVLWVGVRCD 122
Query: 128 DEEILEHNIKQSMCSP 143
+
Sbjct: 123 GAVAEGRETARGDRVA 138
>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA
binding protein, hydrolase, gtpas; HET: GCP; 3.94A
{Escherichia coli} PDB: 2j28_9
Length = 433
Score = 36.7 bits (86), Expect = 0.001
Identities = 19/43 (44%), Positives = 22/43 (51%), Gaps = 3/43 (6%)
Query: 6 PLVVALVGLPARGKTVLAHKLSRYLTWTDHKSKVFSVSA--YR 46
P VV + GL GKT KL ++L K KV VSA YR
Sbjct: 100 PAVVLMAGLQGAGKTTSVGKLGKFLREKHKK-KVLVVSADVYR 141
>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A
{Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*
Length = 287
Score = 36.5 bits (83), Expect = 0.002
Identities = 19/132 (14%), Positives = 41/132 (31%), Gaps = 7/132 (5%)
Query: 6 PLVVALVGLPARGKTVLAHKLSRYLTWTDHKSKVFSVSAYRRKHLELYNSHDIFRVDNTE 65
P L G P GKT L + + + + ++ ++ + ++ +
Sbjct: 33 PTAFLLGGQPGSGKTSLRSAIFEET----QGNVIVIDNDTFKQQHPNFDE--LVKLYEKD 86
Query: 66 GYNIRQLSAREAQEDATKWLKNDGEVAIIDGTTATMEKRKQIHDYFARKMGFKVLFVELI 125
+ E L + G +I+GT T + Q + G++ +
Sbjct: 87 VVKHVTPYSNRMTEAIISRLSDQGYNLVIEGTGRTTDVPIQTATML-QAKGYETKMYVMA 145
Query: 126 VQDEEILEHNIK 137
V I+
Sbjct: 146 VPKINSYLGTIE 157
>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein
struct initiative, northeast structural genomics
consortium, NESG, function; 2.40A {Bacillus halodurans}
SCOP: c.37.1.25
Length = 189
Score = 34.1 bits (78), Expect = 0.008
Identities = 14/130 (10%), Positives = 31/130 (23%), Gaps = 12/130 (9%)
Query: 8 VVALVGLPARGKTVLAHKLSRYLTWTDHKSKVFSVSAYRRKHLELYNSHDIFRVDNTEGY 67
+ + G GK+ +L+ L S + + +
Sbjct: 4 LYIITGPAGVGKSTTCKRLAAQL----DNSAYIEGDIINH---MVVGGYRPPWESDELLA 56
Query: 68 NIRQLSAREAQEDATKWLKNDGEVAIIDGTTATMEKRKQIHDYFARKMGFKVLFVELIVQ 127
+ ++D E A+ ++ F+ L
Sbjct: 57 LTWKNITDLTVNFL-----LAQNDVVLDYIAFPDEAEALAQTVQAKVDDVEIRFIILWTN 111
Query: 128 DEEILEHNIK 137
EE+L +
Sbjct: 112 REELLRRDAL 121
>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A
{Sulfolobus acidocaldarius} SCOP: c.37.1.1
Length = 194
Score = 33.2 bits (75), Expect = 0.016
Identities = 15/92 (16%), Positives = 30/92 (32%), Gaps = 5/92 (5%)
Query: 8 VVALVGLPARGKTVLAHKLSRYLTWTDHKSKVFSVSAYRR---KHLELYNSHDIFRVDNT 64
+ + G+P GK+ + K+ L +K+ + + L D R +
Sbjct: 3 IGIVTGIPGVGKSTVLAKVKEILDNQGINNKIINYGDFMLATALKLGYAKDRDEMRKLSV 62
Query: 65 EGYNIRQLSAREAQEDATKWLKNDGEVAIIDG 96
E Q+ A + + + ID
Sbjct: 63 EKQKKLQIDAAKGIAEEAR--AGGEGYLFIDT 92
>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition
particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A
{Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A
Length = 433
Score = 32.9 bits (76), Expect = 0.025
Identities = 16/43 (37%), Positives = 22/43 (51%), Gaps = 4/43 (9%)
Query: 6 PLVVALVGLPARGKTVLAHKLSRYLTWTDHKSKVFSVSA--YR 46
P ++ LVG+ GKT A KL+ + KV V+A YR
Sbjct: 97 PFIIMLVGVQGSGKTTTAGKLAYFY--KKRGYKVGLVAADVYR 137
>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase,
ultrahigh resolution, protein transport; 1.10A {Thermus
aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B*
1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B*
2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A
1ffh_A 2ng1_A*
Length = 295
Score = 32.5 bits (75), Expect = 0.027
Identities = 14/43 (32%), Positives = 18/43 (41%), Gaps = 4/43 (9%)
Query: 6 PLVVALVGLPARGKTVLAHKLSRYLTWTDHKSKVFSVSA--YR 46
+ LVGL GKT A KL+ Y + V+A R
Sbjct: 98 RNLWFLVGLQGSGKTTTAAKLALYY--KGKGRRPLLVAADTQR 138
>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding,
signal recognition particle, GTP-binding, RNA-binding;
2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B
Length = 432
Score = 32.5 bits (75), Expect = 0.038
Identities = 16/43 (37%), Positives = 22/43 (51%), Gaps = 4/43 (9%)
Query: 6 PLVVALVGLPARGKTVLAHKLSRYLTWTDHKSKVFSVSA--YR 46
V+ LVG+ GKT A KL+RY+ K ++A YR
Sbjct: 99 QNVILLVGIQGSGKTTTAAKLARYI--QKRGLKPALIAADTYR 139
>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal
recognition particle, SRP-GTPase, protein targeting,
cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus
furiosus}
Length = 443
Score = 32.1 bits (74), Expect = 0.039
Identities = 14/43 (32%), Positives = 21/43 (48%), Gaps = 4/43 (9%)
Query: 6 PLVVALVGLPARGKTVLAHKLSRYLTWTDHKSKVFSVSA--YR 46
P ++ +VG+ GKT KL+RY KV V + +R
Sbjct: 100 PTILLMVGIQGSGKTTTVAKLARYF--QKRGYKVGVVCSDTWR 140
>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M
domain, RNA-binding, signal sequence-binding,
helix-turn-helix, protein targeting; 3.20A {Thermus
aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB:
2iy3_A
Length = 425
Score = 32.1 bits (74), Expect = 0.040
Identities = 12/41 (29%), Positives = 17/41 (41%)
Query: 6 PLVVALVGLPARGKTVLAHKLSRYLTWTDHKSKVFSVSAYR 46
+ LVGL GKT A KL+ Y + + + R
Sbjct: 98 RNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQR 138
>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A
{Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB:
1j8y_F
Length = 297
Score = 31.7 bits (73), Expect = 0.053
Identities = 17/43 (39%), Positives = 21/43 (48%), Gaps = 4/43 (9%)
Query: 6 PLVVALVGLPARGKTVLAHKLSRYLTWTDHKSKVFSVSA--YR 46
P V+ LVG+ GKT A KL+ + KV V A YR
Sbjct: 98 PYVIMLVGVQGTGKTTTAGKLAYFY--KKKGFKVGLVGADVYR 138
>1kht_A Adenylate kinase; phosphotransferase, signaling protein,
transferase; HET: AMP; 2.50A {Methanococcus voltae}
SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A
Length = 192
Score = 31.6 bits (71), Expect = 0.054
Identities = 18/92 (19%), Positives = 27/92 (29%), Gaps = 8/92 (8%)
Query: 8 VVALVGLPARGKTVLAHKLSRYLTWTDHKSKVFSVSAYRR---KHLELYNSHDIFRVDNT 64
VV + G+P G T + L K+ S + K L + D R +
Sbjct: 5 VVVVTGVPGVGSTTSSQLAMDNLRKEGVNYKMVSFGSVMFEVAKEENLVSDRDQMRKMDP 64
Query: 65 EGYNIRQLSAREAQEDATKWLKNDGEVAIIDG 96
E Q A + K +D
Sbjct: 65 ETQKRIQKMAGRKIAEMAK-----ESPVAVDT 91
>2ioy_A Periplasmic sugar-binding protein; ribose binding protein,
thermophilic proteins; HET: RIP; 1.90A
{Thermoanaerobacter tengcongensis}
Length = 283
Score = 31.5 bits (72), Expect = 0.072
Identities = 15/62 (24%), Positives = 25/62 (40%), Gaps = 10/62 (16%)
Query: 62 DNTEGYNIRQLSAREAQEDATKWLKNDGEVAIIDG---TTATMEKRKQIHDYFARKMGFK 118
DN +G A E K LK G V ++G +A ++ K + A+ K
Sbjct: 104 DNVKG-------GEMAAEFIAKALKGKGNVVELEGIPGASAARDRGKGFDEAIAKYPDIK 156
Query: 119 VL 120
++
Sbjct: 157 IV 158
>3zvl_A Bifunctional polynucleotide phosphatase/kinase;
hydrolase-transferase complex, base excision repair,
BER, non-homologous END-joining, NHEJ; 1.65A {Mus
musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B*
3u7h_B* 3u7g_A*
Length = 416
Score = 31.4 bits (70), Expect = 0.074
Identities = 20/138 (14%), Positives = 36/138 (26%), Gaps = 33/138 (23%)
Query: 6 PLVVALVGLPARGKTVLAHKLSRYLTWTDHKSKVFSVSAYRRKHLELYNSHDIFRVDNTE 65
P VV VG P GK+ + + + + D
Sbjct: 258 PEVVVAVGFPGAGKSTFIQEHLVSAGYV-------------------HVNRDTLGSWQRC 298
Query: 66 GYNIRQLSAREAQEDATKWLKNDGEVAIIDGTTATMEKRKQIHDYFARKMGFKVLFVELI 125
+ + + G+ +ID T + R + A+ G
Sbjct: 299 VSSCQAALRQ-------------GKRVVIDNTNPDVPSRARYIQ-CAKDAGVPCRCFNFC 344
Query: 126 VQDEEILEHNIKQSMCSP 143
E+ +N + M P
Sbjct: 345 ATIEQARHNNRFREMTDP 362
>1jx6_A LUXP protein; protein-ligand complex, signaling protein; HET: AI2;
1.50A {Vibrio harveyi} SCOP: c.93.1.1 PDB: 1zhh_A*
2hj9_A*
Length = 342
Score = 31.3 bits (71), Expect = 0.090
Identities = 8/61 (13%), Positives = 20/61 (32%), Gaps = 9/61 (14%)
Query: 62 DNTEGYNIRQLSAREAQEDATKWLKNDGEVAIIDGT--TATMEKRKQIHDYFARKMGFKV 119
D+ EG +RE + K+ +++ + + + R F++
Sbjct: 156 DHAEG-------SRELATEFGKFFPKHTYYSVLYFSEGYISDVRGDTFIHQVNRDNNFEL 208
Query: 120 L 120
Sbjct: 209 Q 209
>2rjo_A Twin-arginine translocation pathway signal protei; PSI-2, NYSGXRC,
twin arginine translocation pathway signal P structural
genomics; HET: GAL; 2.05A {Burkholderia phytofirmans}
Length = 332
Score = 30.9 bits (70), Expect = 0.11
Identities = 9/62 (14%), Positives = 18/62 (29%), Gaps = 10/62 (16%)
Query: 62 DNTEGYNIRQLSAREAQEDATKWLKNDGEVAIIDG---TTATMEKRKQIHDYFARKMGFK 118
D E K + G V + G +E++ + + G +
Sbjct: 117 DGVAY-------GEETATQLFKSMGGKGGVVALGGIFSNVPAIERKAGLDAALKKFPGIQ 169
Query: 119 VL 120
+L
Sbjct: 170 LL 171
>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system
kinase, STRU genomics, joint center for structural
genomics, JCSG; 1.95A {Silicibacter SP}
Length = 208
Score = 30.5 bits (69), Expect = 0.14
Identities = 13/49 (26%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 5 TPLVVALVGLPARGKTVLAHKLSRYLTWTDHKSKVFSVSAY--RRKHLE 51
+VAL G P GK+ L++ L+ L+ ++V + + + LE
Sbjct: 21 GRQLVALSGAPGSGKSTLSNPLAAALSAQGLPAEVVPMDGFHLDNRLLE 69
>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP,
translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A
Length = 504
Score = 30.7 bits (70), Expect = 0.14
Identities = 13/43 (30%), Positives = 17/43 (39%), Gaps = 4/43 (9%)
Query: 6 PLVVALVGLPARGKTVLAHKLSRYLTWTDHKSKVFSVSA--YR 46
V+ VGL GKT KL+ Y K + A +R
Sbjct: 101 QNVIMFVGLQGSGKTTTCSKLAYYY--QRKGWKTCLICADTFR 141
>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural
genomics, PSI, protein struc initiative; 3.20A
{Agrobacterium tumefaciens str} SCOP: c.37.1.25
Length = 191
Score = 30.4 bits (68), Expect = 0.15
Identities = 20/141 (14%), Positives = 33/141 (23%), Gaps = 31/141 (21%)
Query: 3 QFTPLVVALVGLPARGKTVLAHKLSRYLTWTDHKSKVFSVSAYRRKHLELYNSHDIFRVD 62
++ L G P GK+ +A L+ + H D
Sbjct: 6 DLGGNILLLSGHPGSGKSTIAEALANLP-------------GVPKVHFHS----DDLWGY 48
Query: 63 NTEGYNIRQLSAREAQE--------DATKWLKNDGEVAIIDGTTATMEKRKQIHDYFARK 114
G L Q D +G I+DG
Sbjct: 49 IKHGRIDPWLPQSHQQNRMIMQIAADVAGRYAKEGYFVILDGVVRPDWLPA------FTA 102
Query: 115 MGFKVLFVELIVQDEEILEHN 135
+ + ++ L E +E
Sbjct: 103 LARPLHYIVLRTTAAEAIERC 123
>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI,
protein structure initiative; 1.90A {Geobacillus
stearothermophilus} SCOP: c.37.1.6
Length = 201
Score = 30.0 bits (68), Expect = 0.20
Identities = 15/49 (30%), Positives = 25/49 (51%)
Query: 6 PLVVALVGLPARGKTVLAHKLSRYLTWTDHKSKVFSVSAYRRKHLELYN 54
LV+ + GL GKT LA++LS+ L VF + + + + Y+
Sbjct: 22 RLVLGIDGLSRSGKTTLANQLSQTLREQGISVCVFHMDDHIVERAKRYH 70
>2x7x_A Sensor protein; transferase, sensor histidine kinase; HET: FRU;
2.64A {Bacteroides thetaiotaomicron}
Length = 325
Score = 30.0 bits (68), Expect = 0.25
Identities = 12/62 (19%), Positives = 20/62 (32%), Gaps = 10/62 (16%)
Query: 62 DNTEGYNIRQLSAREAQEDATKWLKNDGEVAIIDGT---TATMEKRKQIHDYFARKMGFK 118
DN E R LK G + + G T ME+ + ++ K
Sbjct: 109 DNYEI-------GRSVGNYIASSLKGKGNIVELTGLSGSTPAMERHQGFMAAISKFPDIK 161
Query: 119 VL 120
++
Sbjct: 162 LI 163
>3l49_A ABC sugar (ribose) transporter, periplasmic substrate-binding
subunit; sugar binding/transporter, structural genomics,
PSI; HET: UNL; 2.30A {Rhodobacter sphaeroides}
Length = 291
Score = 29.6 bits (67), Expect = 0.30
Identities = 8/62 (12%), Positives = 15/62 (24%), Gaps = 10/62 (16%)
Query: 62 DNTEGYNIRQLSAREAQEDATKWLKNDGEVAIIDG---TTATMEKRKQIHDYFARKMGFK 118
+N E L G V + +G + Q+ K
Sbjct: 106 NNYSI-------GAELALQMVADLGGKGNVLVFNGFYSVPVCKIRYDQMKYVLEAFPDVK 158
Query: 119 VL 120
++
Sbjct: 159 II 160
>2dri_A D-ribose-binding protein; sugar transport; HET: RIP; 1.60A
{Escherichia coli} SCOP: c.93.1.1 PDB: 1urp_A* 1ba2_A
1dbp_A* 1drj_A* 1drk_A* 2gx6_A*
Length = 271
Score = 29.5 bits (67), Expect = 0.35
Identities = 14/62 (22%), Positives = 21/62 (33%), Gaps = 11/62 (17%)
Query: 62 DNTEGYNIRQLSAREAQEDATKWLKNDGEVAIIDG---TTATMEKRKQIHDYFARKMGFK 118
DN G + A + K +V + G T+A E+ + A F
Sbjct: 104 DNVLG-------GKIAGDYIAKKAGEGAKVIELQGIAGTSAARERGEGFQQAVA-AHKFN 155
Query: 119 VL 120
VL
Sbjct: 156 VL 157
>3brs_A Periplasmic binding protein/LACI transcriptional; structural
genomics, protein structure initiative; 2.00A
{Clostridium phytofermentans}
Length = 289
Score = 29.2 bits (66), Expect = 0.40
Identities = 6/65 (9%), Positives = 20/65 (30%), Gaps = 11/65 (16%)
Query: 62 DNTEGYNIRQLSAREAQEDATKWLKNDGEVAIIDG---TTATMEKRKQIHDYFARKMGFK 118
DN + ++ G++ +I + M++ + + + K
Sbjct: 112 DNIQA-------GIRIGAVTKNLVRKSGKIGVISFVKNSKTAMDREEGLKIGLSDD-SNK 163
Query: 119 VLFVE 123
+ +
Sbjct: 164 IEAIY 168
>3g1w_A Sugar ABC transporter; sugar-binding protein, bacillus halod target
11229F, transport protein, structural genomics; 2.02A
{Bacillus halodurans c-125}
Length = 305
Score = 28.9 bits (65), Expect = 0.49
Identities = 10/62 (16%), Positives = 20/62 (32%), Gaps = 10/62 (16%)
Query: 62 DNTEGYNIRQLSAREAQEDATKWLKNDGEVAIIDG-TTATMEKRKQ-IHDYFARKM-GFK 118
+N A + L +GEVA+I ++R + + +
Sbjct: 108 NNYNA-------GMNAAYKMAELLDGEGEVAVITLPNQLNHQERTTGFKETLEAEFPAIE 160
Query: 119 VL 120
V+
Sbjct: 161 VI 162
>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 = 0.56
Identities = 20/93 (21%), Positives = 41/93 (44%), Gaps = 26/93 (27%)
Query: 50 LELYNSH----DIF-RVD----NTEGYNIRQLSAREAQEDATKWLKNDGEVAIIDGTTAT 100
++LY + D++ R D +T G++I + + N + I G
Sbjct: 1633 MDLYKTSKAAQDVWNRADNHFKDTYGFSILDIV-----------INNPVNLTIHFGG--- 1678
Query: 101 MEKRKQIHDYFARKMGFKVLFVELIVQDEEILE 133
EK K+I + ++ M F+ V+ ++ E+I +
Sbjct: 1679 -EKGKRIRENYS-AMIFET-IVDGKLKTEKIFK 1708
Score = 27.3 bits (60), Expect = 1.9
Identities = 22/102 (21%), Positives = 33/102 (32%), Gaps = 25/102 (24%)
Query: 7 LVVALVGLPARGKTVLA--HKLSRYLTWTDHKSKVFSVSAYRRKHLELYNSHDI-FRVDN 63
L + LP V + H S L ++ K+ +N+ DI V +
Sbjct: 414 LKFSNRFLP-----VASPFH--SHLLVPASDL-----INKDLVKNNVSFNAKDIQIPVYD 461
Query: 64 TE-GYNIRQLS-------AREAQEDATKWLKNDGEVA--IID 95
T G ++R LS KW A I+D
Sbjct: 462 TFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILD 503
Score = 26.9 bits (59), Expect = 3.0
Identities = 26/158 (16%), Positives = 48/158 (30%), Gaps = 69/158 (43%)
Query: 5 TP----LVVALVGLPARGKTVLAH-------------KLSRYLTW-TDHKSKVFSVSA-- 44
TP L+ + P G LAH +L YL T H + V+A
Sbjct: 225 TPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGL--VTAVA 282
Query: 45 ----------YR--RKHLEL-----YNSHDIFR------------VDNTEGY-----NIR 70
+ RK + + ++ + ++N EG +I
Sbjct: 283 IAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSIS 342
Query: 71 QLSAREAQEDATKWLKNDGEVAIIDGTTATMEKRKQIH 108
L+ + Q+ ++ T + + KQ+
Sbjct: 343 NLTQEQVQD-------------YVNKTNSHLPAGKQVE 367
>3n0w_A ABC branched chain amino acid family transporter, periplasmic
ligand binding protein...; receptor family ligand
binding region; HET: MSE; 1.88A {Burkholderia
xenovorans}
Length = 379
Score = 28.1 bits (63), Expect = 0.96
Identities = 9/28 (32%), Positives = 11/28 (39%)
Query: 71 QLSAREAQEDATKWLKNDGEVAIIDGTT 98
Q+ A A +W DG AI D
Sbjct: 55 QMKTDVALSIAREWFDRDGVDAIFDVVN 82
>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1,
nicotinic acid riboside kinase activity, NAD
biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB:
2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*
Length = 207
Score = 27.9 bits (62), Expect = 0.99
Identities = 8/28 (28%), Positives = 14/28 (50%)
Query: 6 PLVVALVGLPARGKTVLAHKLSRYLTWT 33
++ + G+ GKT LA L ++L
Sbjct: 21 TFIIGISGVTNSGKTTLAKNLQKHLPNC 48
>1e0b_A SWI6 protein; chromatin-binding, chromodomain, shadow,
heterochromatin; HET: 1PG; 1.9A {Schizosaccharomyces
pombe} SCOP: b.34.13.2
Length = 68
Score = 26.8 bits (59), Expect = 1.0
Identities = 14/41 (34%), Positives = 18/41 (43%), Gaps = 4/41 (9%)
Query: 24 HKLSRYLTWTD-HKSKVFSVSAYRR---KHLELYNSHDIFR 60
L YLTW + S S ++ K L+ Y SH FR
Sbjct: 25 GTLEIYLTWKNGAISHHPSTITNKKCPQKMLQFYESHLTFR 65
>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure
initiati YORK structural genomics research consortium,
nysgrc; 2.20A {Sinorhizobium meliloti}
Length = 202
Score = 27.7 bits (61), Expect = 1.1
Identities = 21/134 (15%), Positives = 41/134 (30%), Gaps = 23/134 (17%)
Query: 3 QFTPLVVALVGLPARGKTVLAHKLSRYLTWTDHKSKVFSVSAYRRKHLELYNSHDIFRVD 62
+ P + ++G+ GK+ + ++ + + RK S I D
Sbjct: 15 RRFPGSIVVMGVSGSGKSSVGEAIAEACGYPFIEGDALHPPENIRKM-----SEGIPLTD 69
Query: 63 NTEGYNIRQLSAREAQEDATKWLKNDGE-VAIIDGTTATMEKRKQIH-DYFARKMGFKVL 120
+D WL GE +A + + K+ + D +
Sbjct: 70 ----------------DDRWPWLAAIGERLASREPVVVSCSALKRSYRDKLRESAPGGLA 113
Query: 121 FVELIVQDEEILEH 134
FV L + + E
Sbjct: 114 FVFLHGSESVLAER 127
>2h3h_A Sugar ABC transporter, periplasmic sugar-binding protein; glucose
binding protein, periplasmic binding protein, GBP; HET:
BGC; 1.70A {Thermotoga maritima} PDB: 2qvc_A* 3c6q_B*
Length = 313
Score = 27.8 bits (62), Expect = 1.4
Identities = 12/62 (19%), Positives = 19/62 (30%), Gaps = 11/62 (17%)
Query: 62 DNTEGYNIRQLSAREAQEDATKWLKNDGEVAIIDG--TTATMEKRKQ-IHDYFARKMGFK 118
DN + A + L G+V I G T +R Q D +
Sbjct: 104 DNYQA-------GYTAGLIMKELLGGKGKVVIGTGSLTAMNSLQRIQGFKDAIKDS-EIE 155
Query: 119 VL 120
++
Sbjct: 156 IV 157
>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1
(PAPS synthetase...; NMP-kinase fold, protein in
complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo
sapiens} PDB: 2pey_A* 2ax4_A*
Length = 179
Score = 27.1 bits (61), Expect = 1.5
Identities = 10/28 (35%), Positives = 12/28 (42%)
Query: 3 QFTPLVVALVGLPARGKTVLAHKLSRYL 30
V L GL GKT ++ L YL
Sbjct: 2 HMRGCTVWLTGLSGAGKTTVSMALEEYL 29
>3ksm_A ABC-type sugar transport system, periplasmic COMP; periplasmic
component, PSI- 11023L, structural genomics, protein
structure initiative; HET: BDR; 1.90A {Hahella
chejuensis}
Length = 276
Score = 26.9 bits (60), Expect = 2.1
Identities = 7/64 (10%), Positives = 20/64 (31%), Gaps = 12/64 (18%)
Query: 62 DNTEGYNIRQLSAREAQEDATKWL--KNDGEVAIIDG---TTATMEKRKQIHDYFARKMG 116
DN + A L + +A++ +T ++ + D +
Sbjct: 106 DNYAA-------GQLAARALLATLDLSKERNIALLRLRAGNASTDQREQGFLDVLRKHDK 158
Query: 117 FKVL 120
+++
Sbjct: 159 IRII 162
>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural
genomics, NPPSFA, national P protein structural and
functional analyses; 2.10A {Aeropyrum pernix}
Length = 186
Score = 26.7 bits (60), Expect = 2.2
Identities = 12/25 (48%), Positives = 16/25 (64%)
Query: 6 PLVVALVGLPARGKTVLAHKLSRYL 30
+VV L GLP GKT +A +L+ L
Sbjct: 13 GIVVWLTGLPGSGKTTIATRLADLL 37
>1zkd_A DUF185; NESG, RPR58, structural genomics, PSI, protein structure
INI northeast structural genomics consortium, unknown
function; 2.10A {Rhodopseudomonas palustris} SCOP:
c.66.1.52
Length = 387
Score = 27.0 bits (60), Expect = 2.4
Identities = 13/68 (19%), Positives = 19/68 (27%), Gaps = 2/68 (2%)
Query: 28 RYLTWTDHKSKVFSVSAYRRKHLELYNSHDIFRVDNTEGYNIRQLSAREAQEDATKWLKN 87
R + VF V+A E + G E + A++
Sbjct: 177 RVIEIGASGELVFGVAADPIPGFEALLPPLA--RLSPPGAVFEWRPDTEILKIASRVRDQ 234
Query: 88 DGEVAIID 95
G IID
Sbjct: 235 GGAALIID 242
>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met
nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A
{Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A*
1m7h_A* 3cr7_A*
Length = 211
Score = 26.5 bits (59), Expect = 2.7
Identities = 13/30 (43%), Positives = 16/30 (53%)
Query: 1 LRQFTPLVVALVGLPARGKTVLAHKLSRYL 30
LR L + L GL A GK+ LA +L L
Sbjct: 20 LRNQRGLTIWLTGLSASGKSTLAVELEHQL 49
>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function
initiative, EFI, STRU genomics, transferase; 1.60A
{Janibacter SP}
Length = 200
Score = 26.6 bits (58), Expect = 2.8
Identities = 20/128 (15%), Positives = 36/128 (28%), Gaps = 16/128 (12%)
Query: 6 PLVVALVGLPARGKTVLAHKLSRYLTWTDHKSKVFSVSAYRRKHLELYNSHDIFRVDNTE 65
V ++G+ GKT +AH ++ ++ F D R
Sbjct: 29 TRHVVVMGVSGSGKTTIAHGVADETGLEFAEADAFHSPENIATMQRGIPLTDEDRWPWL- 87
Query: 66 GYNIRQLSAREAQEDATKWLKNDGEVAIIDGTTATMEKRKQIHDYFARKMGFKVLFVELI 125
+ + + G II + K+ + R+ V F+ L
Sbjct: 88 ----------RSLAEWMDARADAGVSTIITCSA-----LKRTYRDVLREGPPSVDFLHLD 132
Query: 126 VQDEEILE 133
E I
Sbjct: 133 GPAEVIKG 140
>3i09_A Periplasmic branched-chain amino acid-binding Pro; type I
periplasmic binding protein, structural genomics, JOI
for structural genomics; HET: MSE CIT; 1.80A
{Burkholderia mallei}
Length = 375
Score = 26.6 bits (59), Expect = 3.3
Identities = 8/28 (28%), Positives = 12/28 (42%)
Query: 71 QLSAREAQEDATKWLKNDGEVAIIDGTT 98
Q A A A +W+ G ++ GT
Sbjct: 53 QNKADIAASKAREWMDRGGLDLLVGGTN 80
>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function;
HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*
Length = 359
Score = 26.6 bits (58), Expect = 3.3
Identities = 5/59 (8%), Positives = 15/59 (25%), Gaps = 8/59 (13%)
Query: 7 LVVALVGLPARGKTVLAHKLSRYLTWTDHKSKVFSVSA--------YRRKHLELYNSHD 57
A+V + + + +++ R+ L+L+
Sbjct: 120 ECTAVVARGGTANAIRIAAVDNPVNVNKLAQDSINIAQIVPMDGFHLSRRCLDLFKDPQ 178
>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold,
transferase-transferase complex; HET: ADX ANP; 1.79A
{Arabidopsis thaliana} PDB: 4fxp_A*
Length = 200
Score = 26.0 bits (58), Expect = 3.7
Identities = 9/25 (36%), Positives = 14/25 (56%)
Query: 6 PLVVALVGLPARGKTVLAHKLSRYL 30
V+ + GL GK+ LA L++ L
Sbjct: 25 GCVIWVTGLSGSGKSTLACALNQML 49
>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups,
carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}
Length = 321
Score = 26.5 bits (58), Expect = 3.8
Identities = 11/51 (21%), Positives = 19/51 (37%), Gaps = 4/51 (7%)
Query: 5 TPLVVALVGLPARGKTVLAHKLSRYLTWTDHKSKVFSVSA----YRRKHLE 51
P ++ + G A GK+ + L L+ V ++ Y LE
Sbjct: 91 VPYIIGIAGSVAVGKSTTSRVLKALLSRWPDHPNVEVITTDGFLYSNAKLE 141
>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway,
P-loop protein, transferase; 1.8A {Erwinia
chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*
Length = 173
Score = 26.0 bits (58), Expect = 3.9
Identities = 9/31 (29%), Positives = 15/31 (48%), Gaps = 4/31 (12%)
Query: 9 VALVGLPARGKTVLAHKLSRYLTW----TDH 35
+ +VG G T + +L+R L + TD
Sbjct: 5 IFMVGARGCGMTTVGRELARALGYEFVDTDI 35
>3gbv_A Putative LACI-family transcriptional regulator; NYSGXRC, PSI-II,
11231J, structur genomics, protein structure initiative;
2.20A {Bacteroides fragilis}
Length = 304
Score = 26.2 bits (58), Expect = 4.0
Identities = 9/59 (15%), Positives = 14/59 (23%), Gaps = 8/59 (13%)
Query: 73 SAREAQEDATKWLKNDGEVAIID-------GTTATMEKRKQIHDYFARK-MGFKVLFVE 123
S A ND E+ I G+ + Y +L +
Sbjct: 120 SGYFAARMLMLLAVNDREIVIFRKIHEGVIGSNQQESREIGFRQYMQEHHPACNILELN 178
>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA
replication initation factor, cell cycle control factor;
HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11
c.37.1.20
Length = 389
Score = 26.3 bits (57), Expect = 4.5
Identities = 16/90 (17%), Positives = 23/90 (25%), Gaps = 3/90 (3%)
Query: 5 TPLVVALVGLPARGKTVLAHKLSRYLTWTDHKSKVFSVSAYRRKHLELYNSHDIFRVDNT 64
L+G P GKTV KL K+ V +
Sbjct: 43 HYPRATLLGRPGTGKTVTLRKLWELY---KDKTTARFVYINGFIYRNFTAIIGEIARSLN 99
Query: 65 EGYNIRQLSAREAQEDATKWLKNDGEVAII 94
+ R LS E + L+ +
Sbjct: 100 IPFPRRGLSRDEFLALLVEHLRERDLYMFL 129
>3d02_A Putative LACI-type transcriptional regulator; periplasmic
sugar-binding protein, structura genomics; HET: MSE GOL;
1.30A {Klebsiella pneumoniae subsp}
Length = 303
Score = 26.2 bits (58), Expect = 4.6
Identities = 10/57 (17%), Positives = 14/57 (24%), Gaps = 10/57 (17%)
Query: 61 VDNTEGYNIRQLSAREAQEDATKWLKNDGEVAIIDG---TTATMEKRKQIHDYFARK 114
+DN + A E E K + G I G + Y
Sbjct: 107 IDNEKF-------AAEYVEHMAKRMGGKGGYVIYVGSLTVPQHNLWADLLVKYQKEH 156
>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase
activation, cytochrome C, procaspase-9, A nucleotide,
cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A*
3iyt_A* 3iza_A*
Length = 1249
Score = 26.3 bits (58), Expect = 5.0
Identities = 16/77 (20%), Positives = 30/77 (38%), Gaps = 4/77 (5%)
Query: 8 VVALVGLPARGKTVLAHKLSRYLTWTDHKSKV----FSVSAYRRKHLELYNSHDIFRVDN 63
V + G+ GK+VLA + R + + S+ + L + + R+D
Sbjct: 149 WVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQ 208
Query: 64 TEGYNIRQLSAREAQED 80
E ++ R E +D
Sbjct: 209 EESFSQRLPLNIEEAKD 225
>3n0x_A Possible substrate binding protein of ABC transpo system;
receptor family ligand binding region, structural
genomics; HET: MSE; 1.50A {Rhodopseudomonas palustris}
PDB: 3nnd_B
Length = 374
Score = 26.2 bits (58), Expect = 5.1
Identities = 4/28 (14%), Positives = 11/28 (39%)
Query: 71 QLSAREAQEDATKWLKNDGEVAIIDGTT 98
Q ++ + ++DG I ++
Sbjct: 55 QSKPDLSKAALAEAYQDDGADIAIGTSS 82
>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid
biosynthesis, P-loop kinase, metal- binding, shikimate
pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis}
SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A*
2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A*
1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A*
3baf_A*
Length = 184
Score = 25.6 bits (57), Expect = 5.5
Identities = 11/31 (35%), Positives = 16/31 (51%), Gaps = 4/31 (12%)
Query: 9 VALVGLPARGKTVLAHKLSRYLTW----TDH 35
LVGLP GK+ + +L++ L TD
Sbjct: 5 AVLVGLPGSGKSTIGRRLAKALGVGLLDTDV 35
>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB);
structural genomics, PSI, protein structure initiative;
2.10A {Archaeoglobus fulgidus}
Length = 171
Score = 25.8 bits (56), Expect = 5.7
Identities = 8/26 (30%), Positives = 14/26 (53%)
Query: 6 PLVVALVGLPARGKTVLAHKLSRYLT 31
L++++VG GKT L ++ L
Sbjct: 2 SLILSIVGTSDSGKTTLITRMMPILR 27
>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed
alpha-beta fold, elongated beta-sheet, walker A motif,
P-loop structural motif; 1.90A {Escherichia coli} SCOP:
c.37.1.10 PDB: 1p9n_A
Length = 174
Score = 25.6 bits (55), Expect = 6.1
Identities = 16/110 (14%), Positives = 27/110 (24%), Gaps = 10/110 (9%)
Query: 8 VVALVGLPARGKTVLAHKLSRYLT----------WTDHKSKVFSVSAYRRKHLELYNSHD 57
++A GKT L KL L T H V + + +
Sbjct: 8 LLAFAAWSGTGKTTLLKKLIPALCARGIRPGLIKHTHHDMDVDKPGKDSYELRKAGAAQT 67
Query: 58 IFRVDNTEGYNIRQLSAREAQEDATKWLKNDGEVAIIDGTTATMEKRKQI 107
I E + ++ +I E+ +I
Sbjct: 68 IVASQQRWALMTETPDEEELDLQFLASRMDTSKLDLILVEGFKHEEIAKI 117
>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A
{Coxiella burnetii}
Length = 185
Score = 25.6 bits (57), Expect = 6.3
Identities = 8/31 (25%), Positives = 15/31 (48%), Gaps = 4/31 (12%)
Query: 9 VALVGLPARGKTVLAHKLSRYLTW----TDH 35
+ L+GL GKT + +L++ +D
Sbjct: 8 IYLIGLMGAGKTSVGSQLAKLTKRILYDSDK 38
>2odr_C Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 701
Score = 25.7 bits (56), Expect = 6.4
Identities = 7/38 (18%), Positives = 17/38 (44%), Gaps = 1/38 (2%)
Query: 101 MEKRKQIHDYFARKMGFKVLFVELIVQDEEILEHNIKQ 138
+ + + + R MGF+ +IV + +I + +
Sbjct: 68 NDTIENLRQAYLR-MGFEEYINPVIVDERDIYKQFGPE 104
>1xjc_A MOBB protein homolog; structural genomics, midwest center for
structural GEN PSI, protein structure initiative, MCSG;
2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10
Length = 169
Score = 25.4 bits (55), Expect = 6.9
Identities = 15/87 (17%), Positives = 26/87 (29%), Gaps = 15/87 (17%)
Query: 8 VVALVGLPARGKTVLAHKLSRYLTWTDHKSKVFSVSAYRRKHLELYNSHDIFRVDNTEGY 67
V +VG GKT L K + + V + H +
Sbjct: 6 VWQVVGYKHSGKTTLMEKWVAAA-----VREGWRVGTVK---------HHGHGGEPARPE 51
Query: 68 NIRQLSAREAQEDATKWLKNDGEVAII 94
+ + A AT ++ DG + +
Sbjct: 52 GVDSVRHERAGAVAT-AVEGDGLLQLH 77
>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic
region; yeast protein, ATP binding protein; 2.25A
{Saccharomyces cerevisiae} SCOP: c.37.1.6
Length = 290
Score = 25.7 bits (55), Expect = 7.2
Identities = 7/39 (17%), Positives = 15/39 (38%), Gaps = 1/39 (2%)
Query: 6 PLVVALVGLPARGKTVLAHKLSRYLT-WTDHKSKVFSVS 43
PL + G GK+ + ++ +L + + S
Sbjct: 31 PLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYAS 69
>3tun_A Methionyl-tRNA synthetase; aminoacyl-tRNA synthetase, AARS, metrs,
parasite, protein-IN complex, translation, nucleotide
binding; HET: C13; 2.55A {Trypanosoma brucei}
Length = 542
Score = 25.3 bits (55), Expect = 8.7
Identities = 9/45 (20%), Positives = 22/45 (48%)
Query: 15 PARGKTVLAHKLSRYLTWTDHKSKVFSVSAYRRKHLELYNSHDIF 59
++ + +TW ++ +F +SA+R + LE Y+++
Sbjct: 151 KDGNPCKVSLESGHVVTWVSEENYMFRLSAFRERLLEWYHANPGC 195
>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI,
protein structure initiative; 2.05A {Escherichia coli}
SCOP: c.37.1.2
Length = 173
Score = 24.8 bits (55), Expect = 9.2
Identities = 8/31 (25%), Positives = 15/31 (48%), Gaps = 4/31 (12%)
Query: 9 VALVGLPARGKTVLAHKLSRYLTW----TDH 35
+ LVG GK+ + +L++ L +D
Sbjct: 7 IFLVGPMGAGKSTIGRQLAQQLNMEFYDSDQ 37
>4evq_A Putative ABC transporter subunit, substrate-bindi component;
structural genomics, PSI-biology, midwest center for
structu genomics; HET: MSE PHB; 1.40A {Rhodopseudomonas
palustris} PDB: 4evr_A
Length = 375
Score = 25.0 bits (55), Expect = 9.9
Identities = 5/28 (17%), Positives = 13/28 (46%)
Query: 71 QLSAREAQEDATKWLKNDGEVAIIDGTT 98
+ + +A E TK ++++ +I
Sbjct: 64 ESAPPKATELTTKLIQSEKADVLIGTVH 91
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 0.134 0.390
Gapped
Lambda K H
0.267 0.0710 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,220,273
Number of extensions: 123485
Number of successful extensions: 566
Number of sequences better than 10.0: 1
Number of HSP's gapped: 558
Number of HSP's successfully gapped: 96
Length of query: 143
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 59
Effective length of database: 4,356,429
Effective search space: 257029311
Effective search space used: 257029311
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: 52 (23.8 bits)