RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17286
(300 letters)
>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 = 260 bits (666), Expect = 5e-81
Identities = 157/296 (53%), Positives = 181/296 (61%), Gaps = 73/296 (24%)
Query: 72 QISVRGIADVENVTTVKKYFNRHLHFTLVKDRNVATPRDYYFALAYAVRDNLVSRWIRTQ 131
QISVRG+A VENVT +KK FNRHLHFTLVKDRNVATPRDYYFALA+ VRD+LV RWIRTQ
Sbjct: 1 QISVRGLAGVENVTELKKNFNRHLHFTLVKDRNVATPRDYYFALAHTVRDHLVGRWIRTQ 60
Query: 132 QHYFENDPKRVYYLSLEYYMGRSLQNTMINLGIQSAIDEAMYQKIKNGEQTE--EPDDWL 189
QHY+E DPKR+YYLSLE+YMGR+LQNTM+NL +++A DEA YQ + E+ E E D L
Sbjct: 61 QHYYEKDPKRIYYLSLEFYMGRTLQNTMVNLALENACDEATYQLGLDMEELEEIEEDAGL 120
Query: 190 ----------------------------RY------------------------GNPWEK 197
RY GNPWEK
Sbjct: 121 GNGGLGRLAACFLDSMATLGLAAYGYGIRYEFGIFNQKICGGWQMEEADDWLRYGNPWEK 180
Query: 198 ARPEYMIPVNFYGRVAEIGKGKK---YSYCLLRP--------KSSIANT-RYLLFSV--- 242
ARPE+ +PV+FYGRV +G K L P ++++ NT R L+S
Sbjct: 181 ARPEFTLPVHFYGRVEHTSQGAKWVDTQVVLAMPYDTPVPGYRNNVVNTMR--LWSAKAP 238
Query: 243 --LFFPAVNDGDYIQAVLDRNLAENISRVLYPNDNNFGGKELRLKQEYFMCAATLQ 296
N G YIQAVLDRNLAENISRVLYPNDN F GKELRLKQEYF+ AATLQ
Sbjct: 239 NDFNLKDFNVGGYIQAVLDRNLAENISRVLYPNDNFFEGKELRLKQEYFVVAATLQ 294
>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 = 245 bits (627), Expect = 2e-75
Identities = 57/282 (20%), Positives = 100/282 (35%), Gaps = 74/282 (26%)
Query: 83 NVTTVKKYFNRHLHFTLVKDRNVATPRDYYFALAYAVRDNLVSRWIRTQQHYFENDPKRV 142
N ++ +R + TPR ++ A++ A+ + + + V
Sbjct: 6 NDKQFQEALSRQWQRYGLNSAAEMTPRQWWLAVSEALAE----MLRAQPFAKPVANQRHV 61
Query: 143 YYLSLEYYMGRSLQNTMINLGIQSAIDEAMYQKIKNGEQTE--EPD-------------- 186
Y+S+E+ +GR N ++NLG + +++ N E D
Sbjct: 62 NYISMEFLIGRLTGNNLLNLGWYQDVQDSLKAYDINLTDLLEEEIDPALGNGGLGRLAAC 121
Query: 187 --------------------------------------DWLRYGNPWEKARPEYMIPVNF 208
DW R PW + + V
Sbjct: 122 FLDSMATVGQSATGYGLNYQYGLFRQSFVDGKQVEAPDDWHRSNYPWFRHNEALDVQVGI 181
Query: 209 YGRVAEIGKGKKYSYCLLRP--------KSSIANT-RYLLFSV-----LFFPAVNDGDYI 254
G+V + G+ + + ++ +A R L+ NDGD++
Sbjct: 182 GGKVTKDGRWEPEFTITGQAWDLPVVGYRNGVAQPLR--LWQATHAHPFDLTKFNDGDFL 239
Query: 255 QAVLDRNLAENISRVLYPNDNNFGGKELRLKQEYFMCAATLQ 296
+A AE +++VLYPNDN F GK+LRL Q+YF CA ++
Sbjct: 240 RAEQQGINAEKLTKVLYPNDNAFEGKKLRLMQQYFQCACSVA 281
>2c4m_A Glycogen phosphorylase; allosteric control, phosphate dependence,
starch degrading, transferase, glycosyltransferase; HET:
PLP; 1.9A {Corynebacterium callunae}
Length = 796
Score = 233 bits (597), Expect = 4e-71
Identities = 57/277 (20%), Positives = 93/277 (33%), Gaps = 83/277 (29%)
Query: 88 KKYFNRHLHFTLVKDRNVATPRDYYFALAYAVRDNLVSRWIRTQQHYFENDPKRVYYLSL 147
H+ ++AT R ++ L+ AV++ + W RT++ Y ++ +Y S
Sbjct: 10 AALVGSHVRAAAGTPADLATDRKFWTGLSRAVQERIADDWERTREAY--GAARQQHYFSA 67
Query: 148 EYYMGRSLQNTMINLGIQSAIDEAMYQKIKNGEQTE--EPD------------------- 186
E+ MGR+L N + NLG+ A + E D
Sbjct: 68 EFLMGRALLNNLTNLGLVDEAAAATRELGHELTDILEIENDAALGNGGLGRLAACFLDSA 127
Query: 187 ---------------------------------DWLRYGNPWEKARPEYMIPVNFYGRVA 213
W P+ R + V F
Sbjct: 128 VTQDYPVTGYGLLYRFGLFRQSFNEGFQVEKPDPWREEEYPFTIRRASDQLVVCFDDMKT 187
Query: 214 E--------IGKGKKYSYCLLRPKSSIANT-RYLLFSV-----LFFPAVNDGDYIQAVLD 259
G Y + T R L+ + A N + A+++
Sbjct: 188 RAIPYDMPITG----Y-------GTHNVGTLR--LWKAEPWEEFDYDAFNAQRFTDAIIE 234
Query: 260 RNLAENISRVLYPNDNNFGGKELRLKQEYFMCAATLQ 296
R +I RVLYPND + GK+LR++Q+YF +A+LQ
Sbjct: 235 RERVSDICRVLYPNDTTYEGKKLRVRQQYFFTSASLQ 271
>1ygp_A Yeast glycogen phosphorylase; phosphorylated form,
glycosyltransferase; HET: PLP; 2.80A {Saccharomyces
cerevisiae} SCOP: c.87.1.4
Length = 879
Score = 231 bits (592), Expect = 4e-70
Identities = 97/334 (29%), Positives = 125/334 (37%), Gaps = 93/334 (27%)
Query: 54 FVSSSIMSVLKSD-IDKRKQISVRGIADVENVTTVKKYFNRHLHFTLVKDRNVATPRDYY 112
F+ I S+ + R + + + F H+ TL + Y
Sbjct: 10 FLPQEIKSIDTMIPLLSRALWNKHQVKKFNKAEDFQDRFIDHVETTLARSLYNCDDMVAY 69
Query: 113 FALAYAVRDNLVSRWIRTQQHYFENDPKRVYYLSLEYYMGRSLQNTMINLGIQSAIDEAM 172
A + ++RDNLV W +TQQ + DPKRVYYLSLE+ MGR+L N +IN+ I+ D A
Sbjct: 70 EAASMSIRDNLVIDWNKTQQKFTTRDPKRVYYLSLEFLMGRALDNALINMKIEDPEDPAA 129
Query: 173 YQKIKNGEQTE---------------EPDDWL---------------------------- 189
+ EPD L
Sbjct: 130 SKGKPREMIKGALDELGFKLEDVLDQEPDAGLGNGGLGRLAACFVDSMATEGIPAWGYGL 189
Query: 190 RY------------------------GNPWEKARPEYMIPVNFYGRVAEIGKGK-KYSYC 224
RY GNPWE R E IPV FYG V GK S
Sbjct: 190 RYEYGIFAQKIIDGYQVETPDYWLNSGNPWEIERNEVQIPVTFYGYVDRPEGGKTTLSAS 249
Query: 225 LLRP----------------KSSIANT-RYLLFSV-----LFFPAVNDGDYIQAVLDRNL 262
K+S N R L+ N+GDY +V +
Sbjct: 250 QWIGGERVLAVAYDFPVPGFKTSNVNNLR--LWQARPTTEFDLNKFNNGDYKNSVAQQQR 307
Query: 263 AENISRVLYPNDNNFGGKELRLKQEYFMCAATLQ 296
AE+I+ VLYPNDN GKELRLKQ+YF CAA+L
Sbjct: 308 AESITAVLYPNDNFAQGKELRLKQQYFWCAASLH 341
>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 = 37.0 bits (85), Expect = 0.008
Identities = 39/233 (16%), Positives = 73/233 (31%), Gaps = 51/233 (21%)
Query: 2 SVLKSDIDKRKQISVRGIADVENVTTVKKYFNRHLHFT--LVKDRNVATPRDYYFVSSSI 59
S L+ +K G A + TT + + L + LV+ V
Sbjct: 31 SQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKV----------GQF 80
Query: 60 MSVLKSDIDKRKQISVRGIADVENVTTVKKYFNRHLHFTLVKDRNVATPRDYYFALAYAV 119
VL + + + + G ++ + + TLVK + + ++Y A A
Sbjct: 81 DQVLNLCLTEFENCYLEG----NDIHALAAKLLQENDTTLVKTKELI--KNYITARIMAK 134
Query: 120 R---DNLVSRWIRTQQHYFENDPKRVYYL-----SLEYYMG--RSLQNTMINLGIQSAID 169
R S R ++ + + + Y R L T L + I
Sbjct: 135 RPFDKKSNSALFRAVG----EGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVL-VGDLIK 189
Query: 170 EA--MYQKIKNGEQTEEP------D--DWLRYGNPWEKARP--EYM--IPVNF 208
+ ++ E + +WL NP P +Y+ IP++
Sbjct: 190 FSAETLSELIRTTLDAEKVFTQGLNILEWLE--NP--SNTPDKDYLLSIPISC 238
Score = 33.9 bits (77), Expect = 0.080
Identities = 18/132 (13%), Positives = 38/132 (28%), Gaps = 15/132 (11%)
Query: 49 PRDYYFVSSSIMSVLKSDIDKRKQISVRGIADVENVTTVKKYFNRHLHFTLVKDRNVATP 108
P +F++S L+ +K G A + TT + + L + V +
Sbjct: 23 PTASFFIAS----QLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGY--VSSLVEPSK 76
Query: 109 RDYYFALAYAVRDNLVSRWIRTQQ-HYF--------ENDPKRVYYLSLEYYMGRSLQNTM 159
+ + + ++ H + + L Y R +
Sbjct: 77 VGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRP 136
Query: 160 INLGIQSAIDEA 171
+ SA+ A
Sbjct: 137 FDKKSNSALFRA 148
Score = 29.6 bits (66), Expect = 1.5
Identities = 28/158 (17%), Positives = 49/158 (31%), Gaps = 54/158 (34%)
Query: 55 VSSSIMSVLKSD--IDKRKQI---SVRG-------IADVENV-TTVKKYFNRHLHFTLVK 101
+ + LKS I S+ G +ADV ++ + V+ +V
Sbjct: 1739 MEKAAFEDLKSKGLIPADATFAGHSL-GEYAALASLADVMSIESLVE----------VVF 1787
Query: 102 DR----NVATPRDYYFALAY---AVRDNLVSRWIRTQQHYFENDPKRVYYLSLEYYMGRS 154
R VA PRD Y A+ V+ F + + + G
Sbjct: 1788 YRGMTMQVAVPRDELGRSNYGMIAINPGRVAA-------SFSQEALQYVVERVGKRTGWL 1840
Query: 155 LQ--NTMINL-GIQ-------SAIDEAM----YQKIKN 178
++ N N+ Q A+D + K++
Sbjct: 1841 VEIVN--YNVENQQYVAAGDLRALDTVTNVLNFIKLQK 1876
>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 = 34.4 bits (78), Expect = 0.050
Identities = 22/183 (12%), Positives = 51/183 (27%), Gaps = 44/183 (24%)
Query: 21 DVENVTTVKKYFNRHL--HF--TLVKDRNVATPRDYYFVSSSIMSVLKSDIDKRKQISVR 76
D E T +Y + + F V + D V S+L
Sbjct: 8 DFE--TGEHQYQYKDILSVFEDAFVDNF------DCKDVQDMPKSILSK----------- 48
Query: 77 GIADVENVTTVKKYFNR-HLHFTLVKDRNVATPRDYYFALAYAVRDNLVSRWIRTQQHYF 135
+++++ K + F + + + +R N +++ +
Sbjct: 49 --EEIDHIIMSKDAVSGTLRLFWTLLSKQEEM---VQKFVEEVLRINY--KFLMSPIKTE 101
Query: 136 ENDPKRVYYLSLEYYMGRSLQNTMINLGIQSAID-----EAMYQKIKNGEQTEEPDDWLR 190
+ P + + +E ++ + N Q Y K++ P +
Sbjct: 102 QRQPSMMTRMYIEQ------RDRLYN-DNQVFAKYNVSRLQPYLKLRQALLELRPAKNVL 154
Query: 191 -YG 192
G
Sbjct: 155 IDG 157
Score = 33.3 bits (75), Expect = 0.096
Identities = 33/188 (17%), Positives = 70/188 (37%), Gaps = 38/188 (20%)
Query: 5 KSDIDKRKQISVRGIADVENVTTVKKYFNRHLHFTLVKDRNV----------ATPRDYYF 54
S ++K+ + S I + VK LH ++V N+ D YF
Sbjct: 414 YSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYF 473
Query: 55 VSSSIMSVLKSDIDKRKQISVRGIADVENVTTVKKYFNRHLHFTLVKDRNVATPRDYYFA 114
S I LK+ + R + + F K R+ +T + +
Sbjct: 474 YSH-IGHHLKNIEHPERMTLFR-----------MVFLD--FRFLEQKIRHDSTAWNASGS 519
Query: 115 LAYAVRDNLVSRWIRTQQHYFENDPKRVYYL-SLEYYMGRSLQNTMI----NLGIQSAI- 168
+ N + + + + +NDPK + ++ ++ + +N + +L ++ A+
Sbjct: 520 IL-----NTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDL-LRIALM 573
Query: 169 --DEAMYQ 174
DEA+++
Sbjct: 574 AEDEAIFE 581
>1gm5_A RECG; helicase, replication restart; HET: DNA ADP; 3.24A
{Thermotoga maritima} SCOP: a.24.21.1 b.40.4.9 c.37.1.19
c.37.1.19
Length = 780
Score = 29.5 bits (67), Expect = 1.6
Identities = 10/29 (34%), Positives = 13/29 (44%), Gaps = 5/29 (17%)
Query: 210 GRVAEIGKGKKYSYCLL--RPKSSIANTR 236
GRV G+G + +YC L A R
Sbjct: 679 GRV---GRGGQEAYCFLVVGDVGEEAMER 704
>1ofd_A Ferredoxin-dependent glutamate synthase 2; oxidoreductase, complex
enzyme, substrate channeling, amidotransferase,
flavoprotein, iron-sulphur; HET: FMN AKG; 2.00A
{Synechocystis SP} SCOP: b.80.4.1 c.1.4.1 d.153.1.1 PDB:
1llz_A* 1lm1_A* 1llw_A* 1ofe_A*
Length = 1520
Score = 28.7 bits (65), Expect = 3.4
Identities = 7/12 (58%), Positives = 8/12 (66%)
Query: 250 DGDYIQAVLDRN 261
DG + A LDRN
Sbjct: 336 DGKIVGAGLDRN 347
>1ea0_A Glutamate synthase [NADPH] large chain; oxidoreductase, iron
sulphur flavoprotein; HET: OMT FMN AKG; 3.0A
{Azospirillum brasilense} SCOP: b.80.4.1 c.1.4.1
d.153.1.1 PDB: 2vdc_A*
Length = 1479
Score = 28.6 bits (65), Expect = 3.4
Identities = 5/12 (41%), Positives = 8/12 (66%)
Query: 250 DGDYIQAVLDRN 261
DG ++ +DRN
Sbjct: 337 DGRWVVGGMDRN 348
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 0.136 0.400
Gapped
Lambda K H
0.267 0.0794 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,693,269
Number of extensions: 278802
Number of successful extensions: 604
Number of sequences better than 10.0: 1
Number of HSP's gapped: 597
Number of HSP's successfully gapped: 28
Length of query: 300
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 207
Effective length of database: 4,105,140
Effective search space: 849763980
Effective search space used: 849763980
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: 57 (25.6 bits)