RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 026345
(240 letters)
>2c4m_A Glycogen phosphorylase; allosteric control, phosphate dependence,
starch degrading, transferase, glycosyltransferase; HET:
PLP; 1.9A {Corynebacterium callunae}
Length = 796
Score = 251 bits (644), Expect = 6e-79
Identities = 81/234 (34%), Positives = 103/234 (44%), Gaps = 45/234 (19%)
Query: 36 LLLTELDAALGNGGLERLASCFLDSLATLNYPA--------------------------- 68
+L E DAALGNGGL RLA+CFLDS T +YP
Sbjct: 102 ILEIENDAALGNGGLGRLAACFLDSAVTQDYPVTGYGLLYRFGLFRQSFNEGFQVEKPDP 161
Query: 69 WDMDLDTNMACLNNSSLKMVRK--KLQKV--GGENVMDVAYDVPIPGYKTKTTLNLRLWS 124
W +R+ V + YD+PI GY T LRLW
Sbjct: 162 W----------REEEYPFTIRRASDQLVVCFDDMKTRAIPYDMPITGYGTHNVGTLRLWK 211
Query: 125 TKVAAEDFDLHAFNTGDHAKAYAAITNVEKICYVLYPGDEYIARKTLRLKQQYTLCSASV 184
+ E+FD AFN A V IC VLYP D K LR++QQY SAS+
Sbjct: 212 AE-PWEEFDYDAFNAQRFTDAIIERERVSDICRVLYPNDTTYEGKKLRVRQQYFFTSASL 270
Query: 185 QDIIVRYEGRLGEPVNWENFPEKVAVQMNDTHPTLCIPDLIRILMDVKGLSWND 238
Q +I + + NF E +VQ+NDTHP L IP+L+R+LMD + W +
Sbjct: 271 QAMIQDHLAHHK---DLSNFAEFHSVQLNDTHPVLAIPELMRLLMDEHDMGWEE 321
>2gj4_A Glycogen phosphorylase, muscle form; transferase; HET: PLR 2TH;
1.60A {Oryctolagus cuniculus} SCOP: c.87.1.4 PDB:
2gm9_A* 1abb_A* 3nc4_A* 3l79_A* 2pyd_A* 2pyi_A* 3l7a_A*
3l7b_A* 3l7c_A* 3l7d_A* 2qnb_A* 1c8l_A* 1axr_A* 1gpy_A*
1e1y_A* 1lwo_A* 1pyg_A* 1uzu_A* 1lwn_A* 1xkx_A* ...
Length = 824
Score = 213 bits (546), Expect = 1e-64
Identities = 62/149 (41%), Positives = 92/149 (61%), Gaps = 6/149 (4%)
Query: 95 VGGENVMDVAYDVPIPGYKTKTTLNLRLWSTKVAAEDFDLHAFNTGDHAKAYAAITNVEK 154
V + V+ + YD P+PGY+ +RLWS K A DF+L FN G + +A E
Sbjct: 205 VDTQVVLAMPYDTPVPGYRNNVVNTMRLWSAK-APNDFNLKDFNVGGYIQAVLDRNLAEN 263
Query: 155 ICYVLYPGDEYIARKTLRLKQQYTLCSASVQDIIVRYEGRLGEPV-----NWENFPEKVA 209
I VLYP D + K LRLKQ+Y + +A++QDII R++ N++ FP+KVA
Sbjct: 264 ISRVLYPNDNFFEGKELRLKQEYFVVAATLQDIIRRFKSSKFGCRDPVRTNFDAFPDKVA 323
Query: 210 VQMNDTHPTLCIPDLIRILMDVKGLSWND 238
+Q+NDTHP+L IP+L+R+L+D++ L W+
Sbjct: 324 IQLNDTHPSLAIPELMRVLVDLERLDWDK 352
Score = 65.6 bits (161), Expect = 1e-12
Identities = 21/30 (70%), Positives = 24/30 (80%)
Query: 40 ELDAALGNGGLERLASCFLDSLATLNYPAW 69
E DA LGNGGL RLA+CFLDS+ATL A+
Sbjct: 115 EEDAGLGNGGLGRLAACFLDSMATLGLAAY 144
>1ygp_A Yeast glycogen phosphorylase; phosphorylated form,
glycosyltransferase; HET: PLP; 2.80A {Saccharomyces
cerevisiae} SCOP: c.87.1.4
Length = 879
Score = 214 bits (547), Expect = 1e-64
Identities = 67/144 (46%), Positives = 93/144 (64%), Gaps = 4/144 (2%)
Query: 95 VGGENVMDVAYDVPIPGYKTKTTLNLRLWSTKVAAEDFDLHAFNTGDHAKAYAAITNVEK 154
+GGE V+ VAYD P+PG+KT NLRLW + +FDL+ FN GD+ + A E
Sbjct: 252 IGGERVLAVAYDFPVPGFKTSNVNNLRLWQAR-PTTEFDLNKFNNGDYKNSVAQQQRAES 310
Query: 155 ICYVLYPGDEYIARKTLRLKQQYTLCSASVQDIIVRYEGRLGEPVNWENFPEKVAVQMND 214
I VLYP D + K LRLKQQY C+AS+ DI+ R++ W FP++VA+Q+ND
Sbjct: 311 ITAVLYPNDNFAQGKELRLKQQYFWCAASLHDILRRFKKSKR---PWTEFPDQVAIQLND 367
Query: 215 THPTLCIPDLIRILMDVKGLSWND 238
THPTL I +L R+L+D++ L W++
Sbjct: 368 THPTLAIVELQRVLVDLEKLDWHE 391
Score = 67.6 bits (166), Expect = 3e-13
Identities = 22/34 (64%), Positives = 26/34 (76%)
Query: 36 LLLTELDAALGNGGLERLASCFLDSLATLNYPAW 69
+L E DA LGNGGL RLA+CF+DS+AT PAW
Sbjct: 152 VLDQEPDAGLGNGGLGRLAACFVDSMATEGIPAW 185
>1l5w_A Maltodextrin phosphorylase; enzymatic catalysis, substrate complex,
trans; HET: GLC PLP; 1.80A {Escherichia coli} SCOP:
c.87.1.4 PDB: 1l5v_A* 1l6i_A* 2asv_A* 2av6_A* 2aw3_A*
2azd_A* 1qm5_A* 1e4o_A* 2ecp_A* 1ahp_A*
Length = 796
Score = 212 bits (542), Expect = 3e-64
Identities = 55/144 (38%), Positives = 75/144 (52%), Gaps = 4/144 (2%)
Query: 95 VGGENVMDVAYDVPIPGYKTKTTLNLRLWSTKVAAEDFDLHAFNTGDHAKAYAAITNVEK 154
+ A+D+P+ GY+ LRLW A FDL FN GD +A N EK
Sbjct: 192 EPEFTITGQAWDLPVVGYRNGVAQPLRLWQAT-HAHPFDLTKFNDGDFLRAEQQGINAEK 250
Query: 155 ICYVLYPGDEYIARKTLRLKQQYTLCSASVQDIIVRYEGRLGEPVNWENFPEKVAVQMND 214
+ VLYP D K LRL QQY C+ SV DI+ R+ + +Q+ND
Sbjct: 251 LTKVLYPNDNAFEGKKLRLMQQYFQCACSVADILRRHHLAGR---KLHELADYEVIQLND 307
Query: 215 THPTLCIPDLIRILMDVKGLSWND 238
THPT+ IP+L+R+L+D +SW+D
Sbjct: 308 THPTIAIPELLRVLIDEHQMSWDD 331
Score = 66.4 bits (163), Expect = 7e-13
Identities = 22/34 (64%), Positives = 26/34 (76%)
Query: 36 LLLTELDAALGNGGLERLASCFLDSLATLNYPAW 69
LL E+D ALGNGGL RLA+CFLDS+AT+ A
Sbjct: 101 LLEEEIDPALGNGGLGRLAACFLDSMATVGQSAT 134
>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 = 40.8 bits (95), Expect = 3e-04
Identities = 49/241 (20%), Positives = 78/241 (32%), Gaps = 81/241 (33%)
Query: 20 RKAL-IL----VHGKALFPSLLL-LTELDAALGNGGLERLASCFLDSLATLNYPAWDMDL 73
RKA+ +L V +P+ L + L+ +L N E + S L S++ L +
Sbjct: 297 RKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENN--EGVPSPML-SISNLTQEQVQDYV 353
Query: 74 D-TN----------MACLNNS-----------SLKMVRKKLQKVGGENVMDVAYDVPIPG 111
+ TN ++ L N SL + L+K + +D + IP
Sbjct: 354 NKTNSHLPAGKQVEIS-LVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQS---RIPF 409
Query: 112 YKTKTTLNLR-LWSTKVAAEDFDLHAFNTGDH----AKAYAAITNVEKICYVLYPGDEYI 166
+ K + R L VA+ F H A + I L +
Sbjct: 410 SERKLKFSNRFL---PVAS------PF----HSHLLVPA------SDLINKDLVKNNVSF 450
Query: 167 ARKTLR-----------LKQQYTLCSASVQDIIVRYEGRLGEPVNWENFPEKVAVQMNDT 215
K ++ L+ S + D I+R PV WE Q T
Sbjct: 451 NAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIR------LPVKWET-----TTQFKAT 499
Query: 216 H 216
H
Sbjct: 500 H 500
Score = 32.3 bits (73), Expect = 0.14
Identities = 38/235 (16%), Positives = 72/235 (30%), Gaps = 50/235 (21%)
Query: 23 LILVHGKALFPSLLLLTELDAALGNGGLERLASCFLDSL--ATLNY-----PAWDMDL-- 73
L L HG +L LL+ T +L F L T + P +L
Sbjct: 9 LTLSHG-SLEHVLLVPTASFFIA-----SQLQEQFNKILPEPTEGFAADDEPTTPAELVG 62
Query: 74 ----------DTNMACLNNSSLKMVRKKLQK--VGGENVMDVAYDVPIPGYKTKTTLNLR 121
+ + + L + + + + G ++ +A + T + +
Sbjct: 63 KFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALA--AKLLQENDTTLVKTK 120
Query: 122 LW-STKVAAEDFDLHAF-NTGDHAKAYAAITNVEKICYVLYPG----DEYIARKTLRLKQ 175
+ A F + A A ++ ++ G D+Y + LR
Sbjct: 121 ELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQL-VAIFGGQGNTDDYF--EELR--D 175
Query: 176 QYTLCSASVQDIIVRYEGRLGE----PVNWEN-FPEKVAVQ--MNDTHPTLCIPD 223
Y V D+I L E ++ E F + + + + + T PD
Sbjct: 176 LYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNT---PD 227
>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 = 40.2 bits (93), Expect = 4e-04
Identities = 42/302 (13%), Positives = 83/302 (27%), Gaps = 94/302 (31%)
Query: 7 PLAKLPHPLLSPH---RKAL--------ILVHGKA------LFPSLLLLTELDAALGNG- 48
AK L P+ R+AL +L+ G + + L ++ +
Sbjct: 125 VFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKI 184
Query: 49 -----GLERLASCFLDSLATLNYPAWDMDLDTNMACLNNSSLKM--------VRKKLQKV 95
L+ L L Y +D + ++S++K+ +R+ L+
Sbjct: 185 FWLNLKNCNSPETVLEMLQKLLY---QIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSK 241
Query: 96 GGENVMDVAYDVPIPGYKTKTTLNLRLWSTKVAAEDFDLHA---FNTGDHAKAYAAITNV 152
EN + V +V + K F+L T
Sbjct: 242 PYENCLLVLLNV---------------QNAKA-WNAFNLSCKILLTTRFKQVTDFLSAAT 285
Query: 153 EKICYVLYPGDEYIARKTLRLKQQYT--------------------LCSASVQDIIVRYE 192
+ + + L +Y + + S++D + ++
Sbjct: 286 TTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWD 345
Query: 193 GRLGEPVNW-----ENFPEKVAVQMNDTHPT--------LCI-PDLIRILMDVKGLSWND 238
NW + + +N P L + P I + L W D
Sbjct: 346 -------NWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFD 398
Query: 239 II 240
+I
Sbjct: 399 VI 400
Score = 37.1 bits (85), Expect = 0.005
Identities = 32/239 (13%), Positives = 71/239 (29%), Gaps = 36/239 (15%)
Query: 11 LPHPLLSPHRKALILVHGKALFPSLLLLTELDAALGNGGLERLASCFLDSLATLNYPAWD 70
+P +LS I++ A+ +L L L L E + F++ + +NY +
Sbjct: 41 MPKSILSKEEIDHIIMSKDAVSGTLRLFWTL---LSKQ--EEMVQKFVEEVLRINYK-FL 94
Query: 71 MD---LDTNMACLNNSSLKMVRKKLQKVGGENVMDVAYDVPIPGYKTKTTLNLRLWSTKV 127
M + + R +L +N + Y+V + L LR ++
Sbjct: 95 MSPIKTEQRQPSMMTRMYIEQRDRLY---NDNQVFAKYNVSRL----QPYLKLRQALLEL 147
Query: 128 AAEDF-DLHA-FNTGDHAKAYAAITNVEKICYVLYPGDEY------IARKTLRLKQQYTL 179
+ +G A + + C + L+ L
Sbjct: 148 RPAKNVLIDGVLGSGKTWVALDVCLSYKVQC--KMDFKIFWLNLKNCNSPETVLEMLQKL 205
Query: 180 CSASVQDIIVRYEGRLGEPVNWENFPEKVAVQMNDT-HPTLCIPDLIRILMDVKGLSWN 237
+ R + + + ++ + + L+ +L++V N
Sbjct: 206 LYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYEN----CLL-VLLNV----QN 255
Score = 27.9 bits (61), Expect = 3.4
Identities = 14/84 (16%), Positives = 28/84 (33%), Gaps = 11/84 (13%)
Query: 19 HRKALILVHGKALFPSLLL-LTELDAALGNGGLERLA-SCFLDSLATL---------NYP 67
H K + LF + L L+ + + A L++L L N P
Sbjct: 480 HLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDP 539
Query: 68 AWDMDLDTNMACLNNSSLKMVRKK 91
++ ++ + L ++ K
Sbjct: 540 KYERLVNAILDFLPKIEENLICSK 563
>2drh_A PH0078 protein, 361AA long hypothetical D-aminopeptidase;
structural genomics, NPPSFA; 2.10A {Pyrococcus
horikoshii}
Length = 361
Score = 28.2 bits (62), Expect = 2.7
Identities = 15/74 (20%), Positives = 34/74 (45%), Gaps = 2/74 (2%)
Query: 34 SLLLLTELDAALGNGGLERLASCFLDSLATLNYPAWDMDLDTNMACLNNSSLKMVRKKLQ 93
S++++ DA L L R+A + LA A++ D +A + +K K++
Sbjct: 239 SIIMIIATDAPLTGRQLNRVAKRAIVGLARTGGYAYNGSGDIAVAFSTANRIKHYEKEVI 298
Query: 94 KVG--GENVMDVAY 105
++ ++V+ +
Sbjct: 299 EIKALPDSVISPLF 312
>3udf_A Penicillin-binding protein 1A; transglycosylase, transpeptidase;
HET: MES; 1.70A {Acinetobacter baumannii} PDB: 3udi_A*
3udx_A* 3ue0_A* 3ue1_A*
Length = 731
Score = 28.0 bits (63), Expect = 3.2
Identities = 33/159 (20%), Positives = 55/159 (34%), Gaps = 29/159 (18%)
Query: 87 MVRKKLQKVGGENVMDVAYDVPIPGYKTKTTLNLRLWSTKVAAEDFDLHAFNTG----DH 142
MVR +L K GE A D GYK TT+N + + AE A G D
Sbjct: 240 MVRSELVKHFGEQ----AID---SGYKVYTTINAKR---QAIAEK----AVQDGLEAYDR 285
Query: 143 AKAY-AAITNVEKICYVLYPGDEYIARKTLRLKQQYTLCSASVQDIIVRYEG----RLGE 197
+ A + + + + Y A+ T + + V++ G R
Sbjct: 286 RHGWRGAEAHDKPLSEFRAYANTYPAQVTKVNSSSFEALMQDGSTVTVQWSGMSWARPYR 345
Query: 198 PVNWENFPEKVAVQMNDTHPTLCIPDLIRILMDVKGLSW 236
N A Q+ + + D++R+ + +W
Sbjct: 346 NANSVGAAPSRASQI------VKVKDIVRLRPNEAKTAW 378
>3k1d_A 1,4-alpha-glucan-branching enzyme; mycobacterium tuberculosis
H37RV, mesophilic human pathogen, RV1326C gene, glycosyl
transferase; 2.33A {Mycobacterium tuberculosis}
Length = 722
Score = 27.2 bits (61), Expect = 6.2
Identities = 6/16 (37%), Positives = 9/16 (56%)
Query: 131 DFDLHAFNTGDHAKAY 146
+ DLH F G H + +
Sbjct: 103 EVDLHLFAEGRHERLW 118
>3vmn_A Dextranase; TIM barrel, immunoglobrin fold, greek-KEY-motif,
glycoside H family 66, hydrolase; 1.60A {Streptococcus
mutans} PDB: 3vmo_A* 3vmp_A*
Length = 643
Score = 26.8 bits (58), Expect = 8.6
Identities = 27/174 (15%), Positives = 61/174 (35%), Gaps = 10/174 (5%)
Query: 44 ALGNGGLERLASCFLDSLATLNYPAWDMDLDTNMACLNNSSLKMVRKKLQKVGGENVMDV 103
+ + +LA+ D + +P + N + LK ++++ G++++
Sbjct: 336 DVNGENISKLANSKQDVIYNELWP-FGTSALGNRPQESYGDLKARVDQVRQATGKSLIVG 394
Query: 104 AYDVPIPGYKTKTTLNLRLWSTKVAAEDFDLHA--------FNTGDHAKAYAAITNVEKI 155
AY + LN +A+ + A G + + AA+ N
Sbjct: 395 AYMEEPKFDDNRIPLNGAA-RDVLASATYQTDAVLLTTAAIAAAGGYHMSLAALANPNDG 453
Query: 156 CYVLYPGDEYIARKTLRLKQQYTLCSASVQDIIVRYEGRLGEPVNWENFPEKVA 209
V Y ++L++ ++ + Q I YE L + V ++ +
Sbjct: 454 GGVGVLETAYYPTQSLKVSKELNRKNYHYQQFITAYENLLRDKVENDSAEPQTF 507
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
0.320 0.137 0.415
Gapped
Lambda K H
0.267 0.0461 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,690,343
Number of extensions: 211008
Number of successful extensions: 386
Number of sequences better than 10.0: 1
Number of HSP's gapped: 376
Number of HSP's successfully gapped: 22
Length of query: 240
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 149
Effective length of database: 4,160,982
Effective search space: 619986318
Effective search space used: 619986318
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 (21.8 bits)
S2: 56 (26.0 bits)