RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13824
(226 letters)
>3og2_A Beta-galactosidase; TIM barrel domain, glycoside hydrolase, family
35, glycoprot hydrolase; HET: NAG BMA MAN GLC; 1.20A
{Trichoderma reesei} PDB: 3ogr_A* 3ogs_A* 3ogv_A*
Length = 1003
Score = 125 bits (315), Expect = 2e-33
Identities = 32/108 (29%), Positives = 49/108 (45%), Gaps = 1/108 (0%)
Query: 111 SSQTFTVNYSANTFRMDGRPFRFVSGEFHYFRSP-QERWREILRKIRSAGLNAVSTYVGW 169
V + ++ + G SGE H FR P + ++ KI++ G N VS YV W
Sbjct: 20 GPLQNIVTWDEHSLFVHGERVVIFSGEVHPFRLPVPSLYLDVFHKIKALGFNTVSFYVDW 79
Query: 170 SSHEAQPGTYSFDGHRDVEYFMRLAAEEGLYVLLYSGFSWTMKSSWDG 217
+ E +PG + DG +E F A + G+Y+L G + S G
Sbjct: 80 ALLEGKPGRFRADGIFSLEPFFEAATKAGIYLLARPGPYINAEVSGGG 127
>3thd_A Beta-galactosidase; TIM-barrel domain, glycosyl hydrolase,
glycosylation, hydrolase; HET: NAG DGJ; 1.79A {Homo
sapiens} PDB: 3thc_A*
Length = 654
Score = 124 bits (312), Expect = 6e-33
Identities = 47/96 (48%), Positives = 65/96 (67%)
Query: 111 SSQTFTVNYSANTFRMDGRPFRFVSGEFHYFRSPQERWREILRKIRSAGLNAVSTYVGWS 170
+ + F ++YS ++F DG+PFR++SG HY R P+ W++ L K++ AGLNA+ TYV W+
Sbjct: 5 TQRMFEIDYSRDSFLKDGQPFRYISGSIHYSRVPRFYWKDRLLKMKMAGLNAIQTYVPWN 64
Query: 171 SHEAQPGTYSFDGHRDVEYFMRLAAEEGLYVLLYSG 206
HE PG Y F DVEYF+RLA E GL V+L G
Sbjct: 65 FHEPWPGQYQFSEDHDVEYFLRLAHELGLLVILRPG 100
>3d3a_A Beta-galactosidase; protein structure initiative II, PSI II,
NYSGXRC, 11092F, structural genomics; 2.15A {Bacteroides
thetaiotaomicron vpi-5482}
Length = 612
Score = 123 bits (310), Expect = 9e-33
Identities = 36/96 (37%), Positives = 53/96 (55%)
Query: 111 SSQTFTVNYSANTFRMDGRPFRFVSGEFHYFRSPQERWREILRKIRSAGLNAVSTYVGWS 170
S T NTF ++G PF + E HY R P+E W ++ ++ G+N + YV W+
Sbjct: 2 SLSEGTFEVGKNTFLLNGEPFVVKAAEIHYPRIPKEYWEHRIKMCKALGMNTICLYVFWN 61
Query: 171 SHEAQPGTYSFDGHRDVEYFMRLAAEEGLYVLLYSG 206
HE + G Y F G +D+ F RLA E G+YV++ G
Sbjct: 62 FHEPEEGRYDFAGQKDIAAFCRLAQENGMYVIVRPG 97
>4e8d_A Glycosyl hydrolase, family 35; TIM barrel, beta-propeller,
glycohydrolase; 1.80A {Streptococcus pneumoniae} PDB:
4e8c_A
Length = 595
Score = 121 bits (305), Expect = 4e-32
Identities = 34/93 (36%), Positives = 52/93 (55%), Gaps = 3/93 (3%)
Query: 114 TFTVNYSANTFRMDGRPFRFVSGEFHYFRSPQERWREILRKIRSAGLNAVSTYVGWSSHE 173
F + F +DG+ F+ +SG HYFR P E W L +++ G N V TYV W+ HE
Sbjct: 3 RFEIRDD---FYLDGKSFKILSGAIHYFRVPPEDWYHSLYNLKALGFNTVETYVAWNLHE 59
Query: 174 AQPGTYSFDGHRDVEYFMRLAAEEGLYVLLYSG 206
G + F+G D+E F+++A + GLY ++
Sbjct: 60 PCEGEFHFEGDLDLEKFLQIAQDLGLYAIVRPS 92
>1tg7_A Beta-galactosidase; TIM barrel domain, glycoside hydrolase, family
GH35, glycopr penicillium, hydrolase; HET: NAG BMA MAN;
1.90A {Penicillium SP} SCOP: b.149.1.1 b.18.1.27
b.18.1.27 b.71.1.5 c.1.8.14 PDB: 1xc6_A*
Length = 971
Score = 118 bits (296), Expect = 1e-30
Identities = 31/94 (32%), Positives = 48/94 (51%), Gaps = 1/94 (1%)
Query: 114 TFTVNYSANTFRMDGRPFRFVSGEFHYFRSP-QERWREILRKIRSAGLNAVSTYVGWSSH 172
V + ++ ++G SGE H +R P + +I K+++ G N VS YV W+
Sbjct: 3 QKYVTWDEHSIFVNGERLMIFSGEVHPYRLPVASLYIDIFEKVKALGFNCVSFYVDWALL 62
Query: 173 EAQPGTYSFDGHRDVEYFMRLAAEEGLYVLLYSG 206
E PG YS +G D++ F A E G+Y+L G
Sbjct: 63 EGNPGHYSAEGIFDLQPFFDAAKEAGIYLLARPG 96
>3u7v_A Beta-galactosidase; structural genomics, PSI-biology, midwest
center for structu genomics, MCSG, TIM barrel,
glyco_hydro_42; HET: MSE; 1.80A {Caulobacter crescentus}
Length = 552
Score = 112 bits (280), Expect = 1e-28
Identities = 16/96 (16%), Positives = 35/96 (36%), Gaps = 3/96 (3%)
Query: 115 FTVNYSANTFRMDGRPFRFVSGEFHYFRSPQERWREILRKIRSAGLNAVSTYVGWSSHEA 174
+ +DG PF ++ + + + + ++ I G N V + W E
Sbjct: 42 LVTKDGRHALMVDGAPFLMLAAQVNNSSAWPSQMAKVWPAIEKVGANTVQVPIAWEQIEP 101
Query: 175 QPGTYSFDGHRDVEYFMRLAAEEGLYVLLYSGFSWT 210
G + F ++ + A E + ++L +W
Sbjct: 102 VEGQFDFSY---LDLLLEQARERKVRLVLLWFGTWK 134
>3tty_A Beta-GAL, beta-galactosidase; TIM barrel, glycoside hydrolase,
hydrolase; HET: GLA; 2.25A {Bacillus circulans subsp}
PDB: 3tts_A*
Length = 675
Score = 51.5 bits (122), Expect = 7e-08
Identities = 15/97 (15%), Positives = 37/97 (38%), Gaps = 9/97 (9%)
Query: 126 MDGRPFRFVSGEFHYF-RSPQERWREILRKIRSAGLNAVSTYV-GWSSHEAQPGTYSFDG 183
++ + + G + + + E +R AG++ + V W+ + +Y F
Sbjct: 2 INEKFPKIWYGGDYNPEQWDKATMEEDMRMFNLAGIDVATVNVFSWAKIQRDEVSYDFT- 60
Query: 184 HRDVEYFMRLAAEEGLYVLLYSGF----SWTMKSSWD 216
++ + +E +Y+ L + +W K D
Sbjct: 61 --WLDDIIERLTKENIYLCLATSTGAHPAWMAKKYPD 95
>1kwg_A Beta-galactosidase; TIM barrel, glycoside hydrolase family 42,
trimer, hydrolase; 1.60A {Thermus thermophilus} SCOP:
b.71.1.1 c.1.8.1 c.23.16.5 PDB: 1kwk_A*
Length = 645
Score = 49.9 bits (118), Expect = 2e-07
Identities = 21/61 (34%), Positives = 33/61 (54%), Gaps = 4/61 (6%)
Query: 144 PQERWREILRKIRSAGLNAVSTYV-GWSSHEAQPGTYSFDGHRDVEYFMRLAAEEGLYVL 202
P+ERW+E R++R AGL+ V W+ E +PG + ++ + A EGL V+
Sbjct: 12 PKERWKEDARRMREAGLSHVRIGEFAWALLEPEPGRLEWG---WLDEAIATLAAEGLKVV 68
Query: 203 L 203
L
Sbjct: 69 L 69
>2osx_A Endoglycoceramidase II; (alpha/beta)8 (TIM) barrel, hydrolase; HET:
SIA GAL BGC 16C; 1.10A {Rhodococcus SP} PDB: 2oyk_A*
2osw_A* 2oyl_A* 2oym_A* 2osy_A*
Length = 481
Score = 48.8 bits (115), Expect = 5e-07
Identities = 22/83 (26%), Positives = 29/83 (34%), Gaps = 6/83 (7%)
Query: 127 DGRPFRF----VSGEFHYF--RSPQERWREILRKIRSAGLNAVSTYVGWSSHEAQPGTYS 180
DGR + PQ ++ R+ G N V + W S E PG Y
Sbjct: 41 DGRSLILRGFNTASSAKSAPDGMPQFTEADLAREYADMGTNFVRFLISWRSVEPAPGVYD 100
Query: 181 FDGHRDVEYFMRLAAEEGLYVLL 203
VE + AE G V+L
Sbjct: 101 QQYLDRVEDRVGWYAERGYKVML 123
>1rh9_A Endo-beta-mannanase; endo-beta-mannase, retaining, glycoside
hydrolase family 5; 1.50A {Solanum lycopersicum} SCOP:
c.1.8.3
Length = 373
Score = 48.0 bits (113), Expect = 8e-07
Identities = 13/98 (13%), Positives = 37/98 (37%), Gaps = 10/98 (10%)
Query: 122 NTFRMDGRPFRFVS------GEFHYFRSPQERWREILRKIRSAGLNAVSTYV----GWSS 171
F ++G+ Y S + + ++ +N T+ G
Sbjct: 12 THFALNGKSLYINGFNAYWLMYIAYDPSTRIKVTNTFQQASKYKMNVARTWAFSHGGSRP 71
Query: 172 HEAQPGTYSFDGHRDVEYFMRLAAEEGLYVLLYSGFSW 209
++ PG Y+ + +++ + A + G+++++ +W
Sbjct: 72 LQSAPGVYNEQMFQGLDFVISEAKKYGIHLIMSLVNNW 109
>1uuq_A Mannosyl-oligosaccharide glucosidase; hydrolase, mannosidase,
mannan, glycoside hydrolase, family 5; 1.5A {Cellvibrio
mixtus} SCOP: c.1.8.3 PDB: 1uz4_A*
Length = 440
Score = 41.9 bits (97), Expect = 8e-05
Identities = 15/111 (13%), Positives = 34/111 (30%), Gaps = 18/111 (16%)
Query: 124 FRMDGRPFRFV--------SGEFHYFRSPQERWREILRKIRSAGLNAVSTYVGWS----- 170
F + G+P+ ++R + L +++ G+N +
Sbjct: 32 FELQGKPYVITGVNMWYAAYLGAPNEVGDRDRLAKELDNLKAIGVNNLRVLAVSEKSEIN 91
Query: 171 -----SHEAQPGTYSFDGHRDVEYFMRLAAEEGLYVLLYSGFSWTMKSSWD 216
+ G Y + ++Y + A+ + V+LY W
Sbjct: 92 SAVKPAVTNGFGNYDETLLQGLDYLLVELAKRDMTVVLYFNNFWQWSGGMT 142
>1fa2_A Beta-amylase; TIM barrel, hydrolase; HET: DOM; 2.30A {Ipomoea
batatas} SCOP: c.1.8.1
Length = 498
Score = 39.3 bits (91), Expect = 6e-04
Identities = 15/79 (18%), Positives = 31/79 (39%), Gaps = 7/79 (8%)
Query: 146 ERWREI---LRKIRSAGLNAVSTYVGWSSHE-AQPGTYSFDGHRDVEYFMRLAAEEGLYV 201
++ L+++++ G + V V W E P Y + +R++ +L + GL +
Sbjct: 31 PDKEKVEDELKQVKAGGCDGVMVDVWWGIIEAKGPKQYDWSAYREL---FQLVKKCGLKI 87
Query: 202 LLYSGFSWTMKSSWDGTCI 220
F + D I
Sbjct: 88 QAIMSFHQCGGNVGDAVFI 106
>1vem_A Beta-amylase; beta-alpha-barrels, optimum PH, hydrolase; HET: GLC;
1.85A {Bacillus cereus} SCOP: b.3.1.1 c.1.8.1 PDB:
1b90_A* 1j0y_A* 1j0z_A* 1j10_A* 1b9z_A* 1j12_A* 1j18_A*
1j11_A* 5bca_A 1veo_A* 1itc_A* 1ven_A* 1vep_A* 1cqy_A
Length = 516
Score = 38.9 bits (90), Expect = 9e-04
Identities = 10/78 (12%), Positives = 22/78 (28%), Gaps = 4/78 (5%)
Query: 144 PQERWREILRKIRSAGLNAVSTYVGWSSHEAQ-PGTYSFDGHRDVEYFMRLAAEEGLYVL 202
E + LR + G A++ W E + F + + G+ ++
Sbjct: 27 NWETFENDLRWAKQNGFYAITVDFWWGDMEKNGDQQFDFSYAQRF---AQSVKNAGMKMI 83
Query: 203 LYSGFSWTMKSSWDGTCI 220
+ D +
Sbjct: 84 PIISTHQCGGNVGDDCNV 101
>1wdp_A Beta-amylase; (beta/alpha)8 barrel, hydrolase; 1.27A {Glycine max}
SCOP: c.1.8.1 PDB: 1bfn_A* 1q6c_A 1wdr_A* 1v3i_A*
1v3h_A* 1q6d_A* 1q6g_A* 1wdq_A* 1wds_A* 1q6e_A* 1q6f_A*
2dqx_A 1byb_A* 1bya_A* 1byc_A* 1byd_A* 1uko_A 1ukp_A
1btc_A*
Length = 495
Score = 38.5 bits (89), Expect = 0.001
Identities = 18/79 (22%), Positives = 31/79 (39%), Gaps = 7/79 (8%)
Query: 146 ERWREI---LRKIRSAGLNAVSTYVGWSS-HEAQPGTYSFDGHRDVEYFMRLAAEEGLYV 201
E + L ++R+AG++ V V W P Y + +R + ++L E GL +
Sbjct: 30 EDPDGLKEQLLQLRAAGVDGVMVDVWWGIIELKGPKQYDWRAYRSL---LQLVQECGLTL 86
Query: 202 LLYSGFSWTMKSSWDGTCI 220
F + D I
Sbjct: 87 QAIMSFHQCGGNVGDIVNI 105
>2c0h_A Mannan endo-1,4-beta-mannosidase; hydrolase, signal, TIM alpha/beta
barrel; 1.6A {Mytilus edulis} SCOP: c.1.8.3
Length = 353
Score = 36.2 bits (83), Expect = 0.005
Identities = 10/103 (9%), Positives = 27/103 (26%), Gaps = 20/103 (19%)
Query: 120 SANTFRMDGRPFRFV-----------SGEFHYFRSPQERWREILRKIRSAGLNAV----- 163
S +G + + + + L ++S G N+V
Sbjct: 8 SGTNLNYNGHHIFLSGANQAWVNYARDFGHNQYSKGKSTFESTLSDMQSHGGNSVRVWLH 67
Query: 164 ---STYVGWSSHEAQPGTYSFDGHRDVEYFMRLAAEEGLYVLL 203
+ + ++ G D+ ++ A + +
Sbjct: 68 IEGESTPEFDNNGYVTG-IDNTLISDMRAYLHAAQRHNILIFF 109
>1qnr_A Endo-1,4-B-D-mannanase; hydrolase, anomalous scattering; HET: NAG
MAB; 1.4A {Trichoderma reesei} SCOP: c.1.8.3 PDB:
1qno_A* 1qnq_A* 1qnp_A* 1qns_A*
Length = 344
Score = 34.4 bits (78), Expect = 0.025
Identities = 16/105 (15%), Positives = 33/105 (31%), Gaps = 17/105 (16%)
Query: 122 NTFRMDGRPFRFVSGEFHYF--RSPQERWREILRKIRSAGLNAVSTYV------------ 167
F +DG+ F ++ + I S+GL V +
Sbjct: 10 TQFNIDGKVGYFAGTNCYWCSFLTNHADVDSTFSHISSSGLKVVRVWGFNDVNTQPSPGQ 69
Query: 168 ---GWSSHEAQPGTYSFDGHRDVEYFMRLAAEEGLYVLLYSGFSW 209
S DG + ++Y ++ A + L +++ +W
Sbjct: 70 IWFQKLSATGSTINTGADGLQTLDYVVQSAEQHNLKLIIPFVNNW 114
>3icg_A Endoglucanase D; cellulase, xylanase, carbohydrate binding DOM
glucanase, carbohydrate metabolism, cellulose
degradation, glycosidase; HET: BTB; 2.10A {Clostridium
cellulovorans}
Length = 515
Score = 34.1 bits (77), Expect = 0.028
Identities = 16/71 (22%), Positives = 28/71 (39%), Gaps = 3/71 (4%)
Query: 149 REILRKIRSAGLNAVSTYVGWSSHEAQPGTYSFDGHR--DVEYFMRLAAEEGLYVLL-YS 205
++ KI+ AG N + V W H Y+ D VE A + +YV++
Sbjct: 48 HAMINKIKEAGFNTLRLPVTWDGHMGAAPEYTIDQTWMKRVEEIANYAFDNDMYVIINLH 107
Query: 206 GFSWTMKSSWD 216
+ +K +
Sbjct: 108 HENEWLKPFYA 118
>3pzg_A Mannan endo-1,4-beta-mannosidase. glycosyl hydrol 5; alpha/beta
barrel, glycosyl hydrolase, sugar binding, secret
hydrolase; 1.40A {Thermotoga petrophila} PDB: 3pz9_A
3pzi_A* 3pzm_A 3pzn_A* 3pzo_A* 3pzq_A*
Length = 383
Score = 34.1 bits (77), Expect = 0.032
Identities = 18/121 (14%), Positives = 41/121 (33%), Gaps = 22/121 (18%)
Query: 108 HRPSSQTFTVNYSANTFRMDGRPFRFVSGEFHYF-RSPQERWREILRKIRSAGLNAVSTY 166
H S + ++G+ FRF+ +Y +L R G+ + +
Sbjct: 7 HHHHSSGLVPR---GSHMLNGKEFRFIGSNNYYMHYKSNRMIDSVLESARDMGIKVLRIW 63
Query: 167 V----------GWSSHEAQPGTY--------SFDGHRDVEYFMRLAAEEGLYVLLYSGFS 208
+ +PG + + +G ++Y + A E G+ +++ +
Sbjct: 64 GFLDGESYCRDKNTYMHPEPGVFGVPEGISNAQNGFERLDYTIAKAKELGIKLIIVLVNN 123
Query: 209 W 209
W
Sbjct: 124 W 124
>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 = 33.1 bits (75), Expect = 0.080
Identities = 28/161 (17%), Positives = 44/161 (27%), Gaps = 59/161 (36%)
Query: 91 VASVW------ICLRYGNRIRRFHR--PSSQTF----------TVNYSANTFRM--DGRP 130
VW YG I P + T NYSA F DG+
Sbjct: 1642 AQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKL 1701
Query: 131 -FRFVSGEFHY------FRSPQERWRE--------------ILRKIRSAGL-NAVSTYVG 168
+ E + FRS + ++S GL A +T+ G
Sbjct: 1702 KTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAG 1761
Query: 169 WSSH---E-----AQPGTYSFDGHRDVEYFMRLAAEEGLYV 201
H E + S + + + + G+ +
Sbjct: 1762 ---HSLGEYAALASLADVMSIE---SL---VEVVFYRGMTM 1793
Score = 26.9 bits (59), Expect = 6.2
Identities = 9/31 (29%), Positives = 14/31 (45%), Gaps = 2/31 (6%)
Query: 148 WREILRKIRSAGLNAVSTYVGWSSHEAQPGT 178
W +R A + V ++G +EA P T
Sbjct: 289 WESFFVSVRKA-I-TVLFFIGVRCYEAYPNT 317
>3l55_A B-1,4-endoglucanase/cellulase; putative beta-1,4-endoglucanase,
glycosyl hydrolase family 5, mixed alpha-beta, TIM
barrel; HET: MSE; 1.60A {Prevotella bryantii} PDB:
3vdh_A*
Length = 353
Score = 32.0 bits (72), Expect = 0.12
Identities = 14/74 (18%), Positives = 25/74 (33%), Gaps = 1/74 (1%)
Query: 149 REILRKIRSAGLNAVSTYVGWSSHEAQPGTYSFDGHRDVEYFMRLAAEEGLYVLL-YSGF 207
++++ + G NAV V W H G V+ + A GLY ++
Sbjct: 55 QDMMTFLMQNGFNAVRIPVTWYEHMDAEGNVDEAWMMRVKAIVEYAMNAGLYAIVNVHHD 114
Query: 208 SWTMKSSWDGTCIG 221
+ +W
Sbjct: 115 TAAGSGAWIKADTD 128
>1ceo_A Cellulase CELC; glycosyl hydrolase, family A/5 of glycosyl
hydrolases, cellulose degradation; 1.90A {Clostridium
thermocellum} SCOP: c.1.8.3 PDB: 1cen_A 1cec_A
Length = 343
Score = 30.3 bits (68), Expect = 0.45
Identities = 7/61 (11%), Positives = 18/61 (29%), Gaps = 10/61 (16%)
Query: 149 REILRKIRSAGLNAVSTYVGWSSHEAQPGTYSFDGHRDVEYFMRL------AAEEGLYVL 202
+ + I AG + V + E+ + + + + L ++
Sbjct: 31 EKDIETIAEAGFDHVRLPFDYPIIESDDNVGEYKE----DGLSYIDRCLEWCKKYNLGLV 86
Query: 203 L 203
L
Sbjct: 87 L 87
>3nn1_A Chlorite dismutase; ferredoxin like fold, chlorite dismutation,
periplasmatic, oxidoreductase; HET: HEM; 1.85A
{Candidatus nitrospira defluvii} PDB: 3nn2_A* 3nn4_A*
3nn3_A*
Length = 241
Score = 29.9 bits (67), Expect = 0.58
Identities = 9/60 (15%), Positives = 17/60 (28%), Gaps = 1/60 (1%)
Query: 139 HYFRSPQERWREILRKIRSAGLNAVSTYVGWSSHEAQPGTYSFDGHR-DVEYFMRLAAEE 197
W ++ + R + V V S + +Y G + R+ A
Sbjct: 19 FATFQMDHDWWDLPGESRVISVAEVKGLVEQWSGKILVESYLLRGLSDHADLMFRVHART 78
>2vxh_A Chlorite dismutase; heme-based enzyme, oxidoreductase, chlorate
respiration, molecular oxygen production; HET: HEM;
2.10A {Azospira oryzae} PDB: 3q09_A* 3q08_A* 3m2s_A*
3m2q_A*
Length = 251
Score = 29.2 bits (65), Expect = 1.1
Identities = 8/60 (13%), Positives = 17/60 (28%), Gaps = 1/60 (1%)
Query: 139 HYFRSPQERWREILRKIRSAGLNAVSTYVGWSSHEAQPGTYSFDGHR-DVEYFMRLAAEE 197
+ W ++ R V + Y G + ++F R+ A +
Sbjct: 27 FTMFKLRPDWNKVPAMERKGAAEEVKKLIEKHKDNVLVDLYLTRGLETNSDFFFRINAYD 86
>2vzs_A CSXA, EXO-beta-D-glucosaminidase; hydrolase, GH2, glucosamine,
glycoside hydrolase; HET: GCS; 1.85A {Amycolatopsis
orientalis} SCOP: b.1.4.1 b.1.4.1 b.1.4.1 b.18.1.5
c.1.8.3 PDB: 2x05_A* 2x09_A* 2vzo_A 2vzt_A* 2vzv_A*
2vzu_A*
Length = 1032
Score = 29.3 bits (65), Expect = 1.2
Identities = 14/83 (16%), Positives = 31/83 (37%), Gaps = 19/83 (22%)
Query: 123 TFRMDGRPFRFVSGEFH---YFRSPQERWREILRKIRSAGLNAVSTYVGWSSHEAQPGTY 179
+ ++G+P G + + R + + L+ + + GLN V
Sbjct: 348 QYSVNGKPLLIRGGGYTPDLFLRWNETAAADKLKYVLNLGLNTVRL---E---------- 394
Query: 180 SFDGHRDVEYFMRLAAEEGLYVL 202
GH + + F +A + G+ +
Sbjct: 395 ---GHIEPDEFFDIADDLGVLTM 414
>3o0f_A Putative metal-dependent phosphoesterase; structural genomics,
joint center for structural genomics, J protein
structure initiative; HET: AMP; 1.94A {Bifidobacterium
adolescentis} PDB: 3e0f_A*
Length = 301
Score = 28.8 bits (65), Expect = 1.3
Identities = 11/64 (17%), Positives = 20/64 (31%), Gaps = 12/64 (18%)
Query: 138 FHYFRSPQERWREILRKIRSAGLNAVSTYVGWSSHEAQPGTYSFDGHRDVEYFMRLAAEE 197
R+ + E L + + GL+ + E + E + +AA
Sbjct: 205 GDPQRNRRLLSDEQLDAMIADGLDGL---------EVWHRGNPPE---QRERLLTIAARH 252
Query: 198 GLYV 201
L V
Sbjct: 253 DLLV 256
>2je8_A Beta-mannosidase; glycoside hydrolase, hydrolase; HET: B3P; 1.7A
{Bacteroides thetaiotaomicron} SCOP: b.1.4.1 b.1.4.1
b.1.4.1 b.18.1.5 c.1.8.3 PDB: 2vr4_A* 2vl4_A* 2vmf_A*
2vo5_A* 2vot_A* 2vqt_A* 2vjx_A* 2vqu_A* 2wbk_A*
Length = 848
Score = 28.9 bits (64), Expect = 1.5
Identities = 19/99 (19%), Positives = 31/99 (31%), Gaps = 19/99 (19%)
Query: 123 TFRMDGRPFRFVSGEFH-----YFRSPQERWREILRKIRSAGLNAVSTYVGWSSHEAQPG 177
F ++G P + ER++ + R ++ A +N V W +
Sbjct: 324 YFEVNGIPMFAKGANYIPQDALLPNVTTERYQTLFRDMKEANMNMVRI---WGGGTYEN- 379
Query: 178 TYSFDGHRDVEYFMRLAAEEGLYVLLYSGFSWTMKSSWD 216
F LA E G+ V F+ T S
Sbjct: 380 ----------NLFYDLADENGILVWQDFMFACTPYPSDP 408
>1eg2_A Modification methylase RSRI; rossmann fold, exocyclic amino DNA
methyltransferase RSRI, D binding, DNA modification, DNA
methylation; HET: MTA; 1.75A {Rhodobacter sphaeroides}
SCOP: c.66.1.11 PDB: 1nw5_A* 1nw6_A* 1nw7_A* 1nw8_A
Length = 319
Score = 28.6 bits (64), Expect = 1.6
Identities = 9/33 (27%), Positives = 14/33 (42%)
Query: 49 GKGTPQSHPNNMNRTSKWIFPVVMSSSKGRHGH 81
+ P+S N T+ W + +S R GH
Sbjct: 191 KRLNPESVEKGRNPTNVWRMSRLNGNSLERVGH 223
>2hnh_A DNA polymerase III alpha subunit; DNA replication,
nucleotidyltransferase, beta, PHP, transferase; HET:
DNA; 2.30A {Escherichia coli} PDB: 2hqa_A*
Length = 910
Score = 28.2 bits (64), Expect = 2.4
Identities = 7/20 (35%), Positives = 10/20 (50%), Gaps = 1/20 (5%)
Query: 127 DGRPFRFVSGEFHYFRSPQE 146
D + R S + Y RS +E
Sbjct: 227 DPKRPRNYSPQQ-YMRSEEE 245
>1vjz_A Endoglucanase; TM1752, structural genomics, JCSG, PSI, prote
structure initiative, joint center for structural
genomics; 2.05A {Thermotoga maritima} SCOP: c.1.8.3
Length = 341
Score = 28.0 bits (62), Expect = 2.8
Identities = 5/70 (7%), Positives = 17/70 (24%), Gaps = 4/70 (5%)
Query: 138 FHYFRSPQERW--REILRKIRSAGLNAVSTYVGWSSHEAQPGTYSFDGH--RDVEYFMRL 193
F E + N V + + + ++ +
Sbjct: 26 LEAFSIKSTGNFKEEDFLWMAQWDFNFVRIPMCHLLWSDRGNPFIIREDFFEKIDRVIFW 85
Query: 194 AAEEGLYVLL 203
+ G+++ +
Sbjct: 86 GEKYGIHICI 95
>3dx5_A Uncharacterized protein ASBF; beta-alpha barrel, petrobactin
synthesis, ASB locus, structu genomics, PSI-2, protein
structure initiative; HET: MSE DHB TRS; 2.12A {Bacillus
anthracis}
Length = 286
Score = 27.8 bits (62), Expect = 2.9
Identities = 9/67 (13%), Positives = 23/67 (34%), Gaps = 6/67 (8%)
Query: 141 FRSPQERWREILRKIRSAGLNAVSTYVGWSSHEAQPGTYSFDGHRDVEYFMRLAAEEGLY 200
FR + +I++ G + W +H ++ E + ++ L
Sbjct: 10 FRHQLISFTDIVQFAYENGFEGIEL---WGTHAQNLYMQEYE---TTERELNCLKDKTLE 63
Query: 201 VLLYSGF 207
+ + S +
Sbjct: 64 ITMISDY 70
>2ehz_A 1,2-dihydroxynaphthalene dioxygenase; extradiol dioxygenase,
protein substrate complex, oxidoreduc; 1.35A
{Pseudomonas SP} PDB: 2ei0_A* 2ei1_A* 2ei3_A* 2ei2_A
Length = 302
Score = 27.3 bits (60), Expect = 4.5
Identities = 13/90 (14%), Positives = 27/90 (30%), Gaps = 6/90 (6%)
Query: 124 FRMDGRPFRFVSGEFHYFRSPQERWREILRKIRS-AGLNAVSTYVGWSSHEAQPGTYSFD 182
RMD R V + Q+ + ++ A+ + + ++ +
Sbjct: 46 LRMDYWHHRIV-----VHHNGQDDLEYLGWRVAGKPEFEALGQKLIDAGYKIRICDKVEA 100
Query: 183 GHRDVEYFMRLAAEEGLYVLLYSGFSWTMK 212
R V M+ G ++ G M
Sbjct: 101 QERMVLGLMKTEDPGGNPTEIFWGPRIDMS 130
>3rhg_A Putative phophotriesterase; hydrolase, amidohydrolase, zinc binding
site, enzyme functio initiative, EFI; HET: SO4; 1.53A
{Proteus mirabilis}
Length = 365
Score = 27.4 bits (60), Expect = 4.5
Identities = 9/30 (30%), Positives = 14/30 (46%)
Query: 178 TYSFDGHRDVEYFMRLAAEEGLYVLLYSGF 207
T S RD+ ++A G+ V+ SG
Sbjct: 96 TGSSSIGRDIRKLKQVAELTGINVVASSGL 125
>2zyq_A Probable biphenyl-2,3-DIOL 1,2-dioxygenase BPHC; extradiol, DHSA,
TB, catechol, cholesterol, steroid, aromatic
hydrocarbons catabolism; HET: TAR; 2.00A {Mycobacterium
tuberculosis} PDB: 2zi8_A*
Length = 300
Score = 27.3 bits (60), Expect = 4.5
Identities = 17/84 (20%), Positives = 29/84 (34%), Gaps = 6/84 (7%)
Query: 124 FRMDGRPFRFVSGEFHYFRSPQERWREILRKIRS-AGLNAVSTYVGWSSHEAQPGTYSFD 182
RMD P R V +R E + + GL + + + T +
Sbjct: 42 LRMDDFPARLV-----VVPGEHDRLLEAGWECANAEGLQEIRNRLDLEGTPYKEATAAEL 96
Query: 183 GHRDVEYFMRLAAEEGLYVLLYSG 206
R V+ +R A G + ++ G
Sbjct: 97 ADRRVDEMIRFADPSGNCLEVFHG 120
>3qho_A Endoglucanase, 458AA long hypothetical endo-1,4-beta-glucanase;
cellulase, catalytic domain, hydrolase; HET: CTT; 1.65A
{Pyrococcus horikoshii} PDB: 3axx_A* 2zum_A 2zun_A*
3qhm_A* 3qhn_A*
Length = 458
Score = 27.5 bits (60), Expect = 4.6
Identities = 16/67 (23%), Positives = 29/67 (43%), Gaps = 11/67 (16%)
Query: 148 WREILRKIRSAGLNAV-----------STYVGWSSHEAQPGTYSFDGHRDVEYFMRLAAE 196
W ++L +I+S G NA+ T + P D + +E ++ A +
Sbjct: 86 WEDMLLQIKSLGFNAIRLPFCTESVKPGTQPIGIDYSKNPDLRGLDSLQIMEKIIKKAGD 145
Query: 197 EGLYVLL 203
G++VLL
Sbjct: 146 LGIFVLL 152
>2hpi_A DNA polymerase III alpha subunit; POL-beta-like
nucleotidyltransferase fold, transferase; HET: DNA;
3.00A {Thermus aquaticus} PDB: 2hpm_A* 3e0d_A*
Length = 1220
Score = 27.2 bits (61), Expect = 5.1
Identities = 8/20 (40%), Positives = 12/20 (60%), Gaps = 1/20 (5%)
Query: 127 DGRPFRFVSGEFHYFRSPQE 146
D +RF EF Y ++P+E
Sbjct: 238 DPERWRFPCDEF-YVKTPEE 256
>3cmg_A Putative beta-galactosidase; structural genomics, PSI-2, Pro
structure initiative, NEW YORK SGX research center for
STRU genomics, nysgxrc; 1.90A {Bacteroides fragilis}
Length = 667
Score = 27.4 bits (61), Expect = 5.1
Identities = 10/58 (17%), Positives = 18/58 (31%), Gaps = 16/58 (27%)
Query: 144 PQERWREILRKIRSAGLNAVSTYVGWSSHEAQPGTYSFDGHRDVEYFMRLAAEEGLYV 201
+ E + +R G+NA+ +H Y Y L + G+
Sbjct: 302 RPQHHEEDVALMREMGVNAIRL-----AH------YPQA-----TYMYDLMDKHGIVT 343
>3a0f_A Xyloglucanase; beta-propeller, hydrolase; 2.50A {Geotrichum SP}
Length = 763
Score = 27.4 bits (60), Expect = 5.2
Identities = 16/95 (16%), Positives = 27/95 (28%)
Query: 123 TFRMDGRPFRFVSGEFHYFRSPQERWREILRKIRSAGLNAVSTYVGWSSHEAQPGTYSFD 182
T+ P+ + GE + W+ I A T G +
Sbjct: 262 TYSDAPGPWGVLYGEVWSYDPTNGNWKHITPSREGANTYPAPTGNKKVVPGGWNGISVGN 321
Query: 183 GHRDVEYFMRLAAEEGLYVLLYSGFSWTMKSSWDG 217
G V + E+ +Y+ +G SW
Sbjct: 322 GDTVVVSTLDANGEDSVYLSRDAGNSWKDLGKLTT 356
>1wwr_A TRNA adenosine deaminase TADA; homodimer, riken structural
genomics/proteomics initiative, RSGI, structural
genomics, hydrolase; 1.80A {Aquifex aeolicus} SCOP:
c.97.1.2
Length = 171
Score = 26.4 bits (59), Expect = 5.5
Identities = 8/27 (29%), Positives = 11/27 (40%)
Query: 171 SHEAQPGTYSFDGHRDVEYFMRLAAEE 197
H G H EYF+++A E
Sbjct: 7 HHHHSSGLVPRGSHMGKEYFLKVALRE 33
>2wl9_A Catechol 2,3-dioxygenase; aromatic hydrocarbons catabolism, iron,
oxidoreductase; 1.90A {Rhodococcus SP} PDB: 2wl3_A
Length = 305
Score = 26.9 bits (59), Expect = 6.2
Identities = 12/84 (14%), Positives = 27/84 (32%), Gaps = 6/84 (7%)
Query: 124 FRMDGRPFRFVSGEFHYFRSPQERWREILRKIRS-AGLNAVSTYVGWSSHEAQPGTYSFD 182
RMD R V + I ++ L+ ++ + + + + +
Sbjct: 43 LRMDRWHHRIV-----LHADGSDDLAYIGWRVAGPVELDELAEQLKNAGIPFEVASDADA 97
Query: 183 GHRDVEYFMRLAAEEGLYVLLYSG 206
R V ++L G ++ G
Sbjct: 98 AERRVLGLVKLHDPGGNPTEIFYG 121
>3gm8_A Glycoside hydrolase family 2, candidate beta-GLYC; structural
genomics, glycosidase, PSI-2, protein initiative; 2.40A
{Bacteroides vulgatus}
Length = 801
Score = 26.7 bits (59), Expect = 8.9
Identities = 17/74 (22%), Positives = 25/74 (33%), Gaps = 17/74 (22%)
Query: 144 PQERWREILRKIRSAGLNAVSTYVGWSSHEAQPGTYSFDGHRDVEYFMRLAAEEGLYVLL 203
P + L+ ++ G NA+ T SH F F L G+ VL
Sbjct: 305 PDDLLHYRLKLLKDMGCNAIRT-----SH------NPFS-----PAFYNLCDTMGIMVLN 348
Query: 204 YSGFSWT-MKSSWD 216
W K++ D
Sbjct: 349 EGLDGWNQPKAADD 362
>3pt5_A NANS (YJHS), A 9-O-acetyl N-acetylneuraminic acid; SGNH hydrolase,
9-O-acetyl N-acetylneuraminic acid esterase, structural
genomics; 1.60A {Escherichia coli O157}
Length = 337
Score = 26.2 bits (56), Expect = 9.4
Identities = 21/127 (16%), Positives = 33/127 (25%), Gaps = 6/127 (4%)
Query: 98 LRYGNRIRRFHRPSSQTFTVNYSANTFRMDGRPFRFVSGEFHYFRSPQERWREILRKIRS 157
+ + I H P +Y + V H R +
Sbjct: 68 CHFNDIIPLTHCPHDVQDMQSYHHPLATNHQTQYGTVGQALHIARKLLPFIPDN------ 121
Query: 158 AGLNAVSTYVGWSSHEAQPGTYSFDGHRDVEYFMRLAAEEGLYVLLYSGFSWTMKSSWDG 217
AG+ V G S+ A + H R + LY L S + +
Sbjct: 122 AGILIVPCCRGGSAFTAGSEGTYSERHGASHDACRWGTDTPLYQDLVSRTRAALVKNPQN 181
Query: 218 TCIGFLW 224
+G W
Sbjct: 182 KFLGVCW 188
>1kw3_B 2,3-dihydroxybiphenyl dioxygenase; four TIME repetitions of the
beta-alpha-beta-BETA-beta motif oxidoreductase; 1.45A
{Pseudomonas SP} SCOP: d.32.1.3 d.32.1.3 PDB: 1dhy_A
1eiq_A 1eir_A* 1eil_A 1kw6_B* 1kw8_B* 1kw9_B* 1kwb_B
1kwc_B*
Length = 292
Score = 26.1 bits (57), Expect = 9.6
Identities = 14/93 (15%), Positives = 29/93 (31%), Gaps = 6/93 (6%)
Query: 124 FRMDGRPFRFVSGEFHYFRSPQERWREILRKIRS-AGLNAVSTYVGWSSHEAQPGTYSFD 182
+R D R +R + ++ A L ++ + + G +
Sbjct: 40 YRADQRAWRIA-----VQPGELDDLAYAGLEVDDAAALERMADKLRQAGVAFTRGDEALM 94
Query: 183 GHRDVEYFMRLAAEEGLYVLLYSGFSWTMKSSW 215
R V + L GL + +Y G + +
Sbjct: 95 QQRKVMGLLCLQDPFGLPLEIYYGPAEIFHEPF 127
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
0.326 0.139 0.473
Gapped
Lambda K H
0.267 0.0499 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,733,314
Number of extensions: 211991
Number of successful extensions: 720
Number of sequences better than 10.0: 1
Number of HSP's gapped: 709
Number of HSP's successfully gapped: 58
Length of query: 226
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 136
Effective length of database: 4,188,903
Effective search space: 569690808
Effective search space used: 569690808
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 55 (25.5 bits)