RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy629
(166 letters)
>2xsa_A Ogoga, hyaluronoglucosaminidase; O-GLCNACYLATION, O-GLCNACASE,
glycosyl hydrolase, hydrolase; 2.00A {Oceanicola
granulosus} PDB: 2xsb_A*
Length = 447
Score = 190 bits (482), Expect = 2e-59
Identities = 73/165 (44%), Positives = 98/165 (59%), Gaps = 1/165 (0%)
Query: 1 MDSYLYAPKDDYKHRAYWRDLYSVEEAEHLTGLISAAKEQGIDFYYALSPGLDITYSSGK 60
M++Y+Y PKDD RA WR Y LT L AA +G+ FY +L+P LD+TYS +
Sbjct: 31 MNTYIYGPKDDVHVRARWRVPYDAAGLARLTELRDAAAARGMVFYVSLAPCLDVTYSDPQ 90
Query: 61 EVATLKRKLEQVAQFGCRGFALLFDDIESEMSEADKEVFQSFAHAQVSVTNEVFEHLGQP 120
+ A L +++Q+A+ G R LLFDDI S + EAD+ F SFA AQ ++N V HL
Sbjct: 91 DRAALLARVDQLARAGLRNLVLLFDDIPSVLPEADRHRFDSFAEAQADLSNMVLRHLRGA 150
Query: 121 K-FMLCPTQYCSTRAVPNVKNSEYLNTLGSKLAKEIDIMWTGPKV 164
+ CPT+YC A + + S YL LGS L IDI WTGP++
Sbjct: 151 GHVVFCPTEYCGRMAGGDPRGSAYLQRLGSTLDPAIDIFWTGPEI 195
>2v5d_A O-GLCNACASE NAGJ; family 32 carbohydrate binding module,
glycosidase, GH84, GH84C, CBM32, hydrolase, coiled coil;
3.30A {Clostridium perfringens}
Length = 737
Score = 137 bits (345), Expect = 2e-38
Identities = 50/166 (30%), Positives = 81/166 (48%), Gaps = 9/166 (5%)
Query: 1 MDSYLYAPKDDYKHRAYWRDLYSVEEAEHLTGLISAAKEQGIDFYYALSPGLDITYSSG- 59
+++Y+YAPKDD HR WR+ Y E + + LI+A+ E +DF + +SPG+DI +
Sbjct: 180 LNTYIYAPKDDPYHREKWREPYPESEMQRMQELINASAENKVDFVFGISPGIDIRFDGDA 239
Query: 60 --KEVATLKRKLEQVAQFGCRGFALLFDDIESEMSEADKEVFQSFAHAQVSVTNEVFEHL 117
++ L K E + G R FA+ +DDI+ + + +V F V +V
Sbjct: 240 GEEDFNHLITKAESLYDMGVRSFAIYWDDIQDKSAAKHAQVLNRFNEEFVKAKGDVK--- 296
Query: 118 GQPKFMLCPTQYCSTRAVPNVKNSEYLNTLGSKLAKEIDIMWTGPK 163
+ PT+Y + V N + Y + I++MWTGP
Sbjct: 297 ---PLITVPTEYDTGAMVSNGQPRAYTRIFAETVDPSIEVMWTGPG 339
>2v5c_A O-GLCNACASE NAGJ; glycosidase, GH84, GH84C, hydrolase, coiled coil,
family 84 glycoside hydrolase, carbohydrate binding
module; 2.10A {Clostridium perfringens} PDB: 2cbj_A*
2cbi_A 2vur_A* 2x0y_A* 2j62_A* 2wb5_A* 2xpk_A* 2yds_A*
2ydr_A* 2ydq_A*
Length = 594
Score = 127 bits (320), Expect = 4e-35
Identities = 51/167 (30%), Positives = 82/167 (49%), Gaps = 9/167 (5%)
Query: 1 MDSYLYAPKDDYKHRAYWRDLYSVEEAEHLTGLISAAKEQGIDFYYALSPGLDITYSSG- 59
+++Y+YAPKDD HR WR+ Y E + + LI+A+ E +DF + +SPG+DI +
Sbjct: 180 LNTYIYAPKDDPYHREKWREPYPESEMQRMQELINASAENKVDFVFGISPGIDIRFDGDA 239
Query: 60 --KEVATLKRKLEQVAQFGCRGFALLFDDIESEMSEADKEVFQSFAHAQVSVTNEVFEHL 117
++ L K E + G R FA+ +DDI+ + + +V F V +V
Sbjct: 240 GEEDFNHLITKAESLYDMGVRSFAIYWDDIQDKSAAKHAQVLNRFNEEFVKAKGDVKP-- 297
Query: 118 GQPKFMLCPTQYCSTRAVPNVKNSEYLNTLGSKLAKEIDIMWTGPKV 164
+ PT+Y + V N + Y + I++MWTGP V
Sbjct: 298 ----LITVPTEYDTGAMVSNGQPRAYTRIFAETVDPSIEVMWTGPGV 340
>2cho_A Glucosaminidase, hexosaminiase; O-GLCNACASE, hydrolase,
N-acetylglucosamine; 1.85A {Bacteroides
thetaiotaomicron} SCOP: a.246.1.1 c.1.8.10 d.92.2.3 PDB:
2chn_A 2vvn_A* 2vvs_A* 2x0h_A* 2xm2_A* 2w4x_A* 2w66_A*
2w67_A* 2wca_A* 2xj7_A* 2xm1_A* 2j47_A* 2jiw_A* 2wzh_A*
2wzi_A* 2j4g_A*
Length = 716
Score = 117 bits (293), Expect = 3e-31
Identities = 63/170 (37%), Positives = 88/170 (51%), Gaps = 19/170 (11%)
Query: 1 MDSYLYAPKDDYKHR-AYWRDLYSVEEAEHLTGLISAAKEQGIDFYYALSPGLDITYSSG 59
M++Y+Y PKDD H WR Y +EA L L++ A E +DF +A+ PG DI ++
Sbjct: 158 MNTYIYGPKDDPYHSAPNWRLPYPDKEAAQLQELVAVANENEVDFVWAIHPGQDIKWNK- 216
Query: 60 KEVATLKRKLEQVAQFGCRGFALLFDDIESEMSEADKEVFQSFAHAQVSVTNEVFEHLGQ 119
++ L K E++ Q G R FA+ FDDI E + K Q + N + E Q
Sbjct: 217 EDRDLLLAKFEKMYQLGVRSFAVFFDDISGEGTNPQK---------QAELLNYIDEKFAQ 267
Query: 120 PK-----FMLCPTQYCSTRAVPNVKNSEYLNTLGSKLAKEIDIMWTGPKV 164
K ++CPT+Y + + P N YL TLG KL I IMWTG +V
Sbjct: 268 VKPDINQLVMCPTEYNKSWSNP---NGNYLTTLGDKLNPSIQIMWTGDRV 314
>3igz_B Cofactor-independent phosphoglycerate mutase; glycolysis, cobalt,
isomerase; HET: 3PG 2PG; 1.90A {Leishmania mexicana}
PDB: 3igy_B* 3nvl_A
Length = 561
Score = 27.6 bits (62), Expect = 2.2
Identities = 14/55 (25%), Positives = 20/55 (36%), Gaps = 3/55 (5%)
Query: 28 EHLTGLISAAKEQGIDFYY--ALSPGLDITYSSGKE-VATLKRKLEQVAQFGCRG 79
+ +I A + G AL G D+ S L+ L +V Q GC
Sbjct: 140 NQIYSIIEHAVKDGAKRIRVHALYDGRDVPDGSSFRFTDELEAVLAKVRQNGCDA 194
>3do5_A HOM, homoserine dehydrogenase; NP_069768.1, putative homoserine
dehydrogenase, structural G joint center for structural
genomics, JCSG; 2.20A {Archaeoglobus fulgidus}
Length = 327
Score = 26.8 bits (60), Expect = 3.2
Identities = 6/20 (30%), Positives = 9/20 (45%)
Query: 27 AEHLTGLISAAKEQGIDFYY 46
GL+S A+ G+ Y
Sbjct: 120 VAEFHGLMSLAERNGVRLMY 139
>3ing_A Homoserine dehydrogenase; NP_394635.1, structural genomics, center
for structural genomics, JCSG, protein structure INI
PSI-2; HET: NDP; 1.95A {Thermoplasma acidophilum}
Length = 325
Score = 26.4 bits (59), Expect = 5.0
Identities = 3/20 (15%), Positives = 7/20 (35%)
Query: 27 AEHLTGLISAAKEQGIDFYY 46
A ++ +A + Y
Sbjct: 122 ANKWHDIMDSANQNSKYIRY 141
>1w2w_B 5-methylthioribose-1-phosphate isomerase; EIF2B, methionine salvage
pathway, translation initiation, oxidoreductase; 1.75A
{Saccharomyces cerevisiae} SCOP: c.124.1.5
Length = 191
Score = 26.0 bits (58), Expect = 5.2
Identities = 13/80 (16%), Positives = 25/80 (31%), Gaps = 1/80 (1%)
Query: 36 AAKEQGIDFYYAL-SPGLDITYSSGKEVATLKRKLEQVAQFGCRGFALLFDDIESEMSEA 94
K+ GI F+ +D +G ++ +R E+ + S
Sbjct: 80 ICKQFGIKFFVVAPKTTIDNVTETGDDIIVEERNPEEFKVVTGTVINPENGSLILNESGE 139
Query: 95 DKEVFQSFAHAQVSVTNEVF 114
A +++V N F
Sbjct: 140 PITGKVGIAPLEINVWNPAF 159
>3c8m_A Homoserine dehydrogenase; structural genomics, APC89447, PS protein
structure initiative, midwest center for structural
genomics; HET: MSE; 1.90A {Thermoplasma volcanium GSS1}
PDB: 3jsa_A*
Length = 331
Score = 26.0 bits (58), Expect = 5.9
Identities = 3/20 (15%), Positives = 6/20 (30%)
Query: 27 AEHLTGLISAAKEQGIDFYY 46
A ++ A+ Y
Sbjct: 126 ANFWPEIMEYARSNNRRIRY 145
>1t9k_A Probable methylthioribose-1-phosphate isomerase; structural
genomics, translation initiation factor, AIF-2B subunit,
PSI; 2.60A {Thermotoga maritima} SCOP: c.124.1.5
Length = 347
Score = 25.7 bits (57), Expect = 8.7
Identities = 15/42 (35%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 36 AAKEQGIDFYYAL-SPGLDITYSSGKEVATLKRKLEQVAQFG 76
AK I FY A +D T SG+E+ +R+ E+V G
Sbjct: 256 LAKRNNIPFYVAAPVSTIDPTIRSGEEIPIEERRPEEVTHCG 297
>2yvk_A Methylthioribose-1-phosphate isomerase; methionine salvage
pathway,; HET: MRU; 2.40A {Bacillus subtilis} PDB:
2yrf_A*
Length = 374
Score = 25.8 bits (57), Expect = 8.8
Identities = 10/42 (23%), Positives = 15/42 (35%), Gaps = 1/42 (2%)
Query: 36 AAKEQGIDFYYAL-SPGLDITYSSGKEVATLKRKLEQVAQFG 76
A I F+ A D G ++ +R E+V Q
Sbjct: 281 LANAFDIPFFVAAPLSTFDTKVKCGADIPIEERDPEEVRQIS 322
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
0.317 0.133 0.393
Gapped
Lambda K H
0.267 0.0739 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,491,975
Number of extensions: 134040
Number of successful extensions: 324
Number of sequences better than 10.0: 1
Number of HSP's gapped: 316
Number of HSP's successfully gapped: 18
Length of query: 166
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 79
Effective length of database: 4,272,666
Effective search space: 337540614
Effective search space used: 337540614
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (24.2 bits)