RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 005595
(689 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 = 1146 bits (2968), Expect = 0.0
Identities = 328/698 (46%), Positives = 445/698 (63%), Gaps = 24/698 (3%)
Query: 1 MATLNLPAWGYGLRYRYGLFKQKITKQGQEEVAEDWLEKFSPWEVVRHDVVFPVRFFGSV 60
MATL L A+GYG+RY +G+F QKI Q E A+DWL +PWE R + PV F+G V
Sbjct: 136 MATLGLAAYGYGIRYEFGIFNQKICGGWQMEEADDWLRYGNPWEKARPEFTLPVHFYGRV 195
Query: 61 MVNPNGTRKWVGGEVVQAVAYDIPIPGYKTKNTISLRLWDAKASAEDFNLFQFNDGQYES 120
G + WV +VV A+ YD P+PGY+ ++RLW AKA DFNL FN G Y
Sbjct: 196 EHTSQGAK-WVDTQVVLAMPYDTPVPGYRNNVVNTMRLWSAKAP-NDFNLKDFNVGGYIQ 253
Query: 121 AAQLHSRAQQICAVLYPGDSTEEGKLLRLKQQFFLCSASLQDMILRFKERK------SGR 174
A + A+ I VLYP D+ EGK LRLKQ++F+ +A+LQD+I RFK K
Sbjct: 254 AVLDRNLAENISRVLYPNDNFFEGKELRLKQEYFVVAATLQDIIRRFKSSKFGCRDPVRT 313
Query: 175 QWSEFPSKVAVQLNDTHPTLAIPELMRLLMDEEGLGWDEAWDITTRTVAYTNHTVLPEAL 234
+ FP KVA+QLNDTHP+LAIPELMR+L+D E L WD+AW++T +T AYTNHTVLPEAL
Sbjct: 314 NFDAFPDKVAIQLNDTHPSLAIPELMRVLVDLERLDWDKAWEVTVKTCAYTNHTVLPEAL 373
Query: 235 EKWSQAVMWKLLPRHMEIIEEIDKRFIAMVRSTRSDLESKIPSMCILDNNPKKPVVRMAN 294
E+W ++ LLPRH++II EI++RF+ V + ++ M +++ K + MA+
Sbjct: 374 ERWPVHLLETLLPRHLQIIYEINQRFLNRVAAAFPGDVDRLRRMSLVEEGAVK-RINMAH 432
Query: 295 LCVVSAHTVNGVAQLHSDILKADLFADYVSLWPNKLQNKTNGITPRRWLRFCNPELSKII 354
LC+ +H VNGVA++HS+ILK +F D+ L P+K QNKTNGITPRRWL CNP L++II
Sbjct: 433 LCIAGSHAVNGVARIHSEILKKTIFKDFYELEPHKFQNKTNGITPRRWLVLCNPGLAEII 492
Query: 355 TKWLKTDQWVTNLDLLVGLRQFADNTELQAEWESAKMASKKHLADYIWRVTGVTIDPNSL 414
+ + + ++++LD L L + D+ + K +K A Y+ R V I+PNSL
Sbjct: 493 AERIGEE-YISDLDQLRKLLSYVDDEAFIRDVAKVKQENKLKFAAYLEREYKVHINPNSL 551
Query: 415 FDIQVKRIHEYKRQLLNILGAIYRYKKLKEMSPQERKKTTPRTIMIGGKAFATYTNAKRI 474
FD+QVKRIHEYKRQLLN L I Y ++K+ + K PRT+MIGGKA Y AK I
Sbjct: 552 FDVQVKRIHEYKRQLLNCLHVITLYNRIKK---EPNKFVVPRTVMIGGKAAPGYHMAKMI 608
Query: 475 VKLVNDVGEVVNTDPEVNSYLKVVFVPNYNVSVAELLIPGSELSQHISTAGMEASGTSNM 534
+KL+ +G+VVN DP V L+V+F+ NY VS+AE +IP ++LS+ ISTAG EASGT NM
Sbjct: 609 IKLITAIGDVVNHDPVVGDRLRVIFLENYRVSLAEKVIPAADLSEQISTAGTEASGTGNM 668
Query: 535 KFSLNGCLIIGTLDGANVEIRQEIGEENFFLFGAVAEQVPKLRKEREDG--LFKPDPRFE 592
KF LNG L IGT+DGANVE+ +E GEENFF+FG E V +L + + + P
Sbjct: 669 KFMLNGALTIGTMDGANVEMAEEAGEENFFIFGMRVEDVDRLDQRGYNAQEYYDRIPELR 728
Query: 593 EAKQFIRSGAFGSYD---YNPLLDSLEGNTGYGRGDYFLVGYDFPSYLEAQDRVDQAYKD 649
+ + + SG F + +++ L + D F V D+ Y++ Q+RV YK+
Sbjct: 729 QIIEQLSSGFFSPKQPDLFKDIVNMLMHH------DRFKVFADYEEYVKCQERVSALYKN 782
Query: 650 QKKWLKMSILSTAGSGKFSSDRTIAQYAKEIWNITECR 687
++W +M I + A SGKFSSDRTIAQYA+EIW + R
Sbjct: 783 PREWTRMVIRNIATSGKFSSDRTIAQYAREIWGVEPSR 820
>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 = 1133 bits (2934), Expect = 0.0
Identities = 300/688 (43%), Positives = 419/688 (60%), Gaps = 24/688 (3%)
Query: 1 MATLNLPAWGYGLRYRYGLFKQKITKQGQEEVAEDWLEKFSPWEVVRHDVVFPVRFFGSV 60
MAT+ A GYGL Y+YGLF+Q Q E +DW PW + V G V
Sbjct: 126 MATVGQSATGYGLNYQYGLFRQSFVDGKQVEAPDDWHRSNYPWFRHNEALDVQVGIGGKV 185
Query: 61 MVNPNGTRKWVGGEVVQAVAYDIPIPGYKTKNTISLRLWDAKASAEDFNLFQFNDGQYES 120
+ +W + A+D+P+ GY+ LRLW A + F+L +FNDG +
Sbjct: 186 TKD----GRWEPEFTITGQAWDLPVVGYRNGVAQPLRLWQATHA-HPFDLTKFNDGDFLR 240
Query: 121 AAQLHSRAQQICAVLYPGDSTEEGKLLRLKQQFFLCSASLQDMILRFKERKSGRQWSEFP 180
A Q A+++ VLYP D+ EGK LRL QQ+F C+ S+ D++ R +GR+ E
Sbjct: 241 AEQQGINAEKLTKVLYPNDNAFEGKKLRLMQQYFQCACSVADILRRHH--LAGRKLHELA 298
Query: 181 SKVAVQLNDTHPTLAIPELMRLLMDEEGLGWDEAWDITTRTVAYTNHTVLPEALEKWSQA 240
+QLNDTHPT+AIPEL+R+L+DE + WD+AW IT++T AYTNHT++PEALE+W
Sbjct: 299 DYEVIQLNDTHPTIAIPELLRVLIDEHQMSWDDAWAITSKTFAYTNHTLMPEALERWDVK 358
Query: 241 VMWKLLPRHMEIIEEIDKRFIAMVRSTRSDLESKIPSMCILDNNPKKPVVRMANLCVVSA 300
++ LLPRHM+II EI+ RF +V T E + ++ + V MANLCVV
Sbjct: 359 LVKGLLPRHMQIINEINTRFKTLVEKTWPGDEKVWAKLAVVHDK----QVHMANLCVVGG 414
Query: 301 HTVNGVAQLHSDILKADLFADYVSLWPNKLQNKTNGITPRRWLRFCNPELSKIITKWLKT 360
VNGVA LHSD++ DLF +Y LWPNK N TNGITPRRW++ CNP L+ ++ K L+
Sbjct: 415 FAVNGVAALHSDLVVKDLFPEYHQLWPNKFHNVTNGITPRRWIKQCNPALAALLDKSLQK 474
Query: 361 DQWVTNLDLLVGLRQFADNTELQAEWESAKMASKKHLADYIWRVTGVTIDPNSLFDIQVK 420
+ W +LD L+ L +FAD+ + + ++ K A+K LA+++ TG+ I+P ++FDIQ+K
Sbjct: 475 E-WANDLDQLINLEKFADDAKFRQQYREIKQANKVRLAEFVKVRTGIEINPQAIFDIQIK 533
Query: 421 RIHEYKRQLLNILGAIYRYKKLKEMSPQERKKTTPRTIMIGGKAFATYTNAKRIVKLVND 480
R+HEYKRQ LN+L + YK+++E +R PR + G KA Y AK I+ +N
Sbjct: 534 RLHEYKRQHLNLLHILALYKEIRENPQADR---VPRVFLFGAKAAPGYYLAKNIIFAINK 590
Query: 481 VGEVVNTDPEVNSYLKVVFVPNYNVSVAELLIPGSELSQHISTAGMEASGTSNMKFSLNG 540
V +V+N DP V LKVVF+P+Y VS AE LIP +++S+ ISTAG EASGT NMK +LNG
Sbjct: 591 VADVINNDPLVGDKLKVVFLPDYCVSAAEKLIPAADISEQISTAGKEASGTGNMKLALNG 650
Query: 541 CLIIGTLDGANVEIRQEIGEENFFLFGAVAEQVPKLRKERED--GLFKPDPRFEEAKQFI 598
L +GTLDGANVEI +++GEEN F+FG EQV + + D K D + + +
Sbjct: 651 ALTVGTLDGANVEIAEKVGEENIFIFGHTVEQVKAILAKGYDPVKWRKKDKVLDAVLKEL 710
Query: 599 RSGAFGSYD---YNPLLDSLEGNTGYGRGDYFLVGYDFPSYLEAQDRVDQAYKDQKKWLK 655
SG + D ++ +L S+ G GD +LV DF +Y+EAQ +VD Y+DQ+ W +
Sbjct: 711 ESGKYSDGDKHAFDQMLHSI----GKQGGDPYLVMADFAAYVEAQKQVDVLYRDQEAWTR 766
Query: 656 MSILSTAGSGKFSSDRTIAQYAKEIWNI 683
+IL+TA G FSSDR+I Y IW
Sbjct: 767 AAILNTARCGMFSSDRSIRDYQARIWQA 794
>1ygp_A Yeast glycogen phosphorylase; phosphorylated form,
glycosyltransferase; HET: PLP; 2.80A {Saccharomyces
cerevisiae} SCOP: c.87.1.4
Length = 879
Score = 1130 bits (2925), Expect = 0.0
Identities = 330/708 (46%), Positives = 454/708 (64%), Gaps = 32/708 (4%)
Query: 1 MATLNLPAWGYGLRYRYGLFKQKITKQGQEEVAEDWLEKFSPWEVVRHDVVFPVRFFGSV 60
MAT +PAWGYGLRY YG+F QKI Q E + WL +PWE+ R++V PV F+G V
Sbjct: 177 MATEGIPAWGYGLRYEYGIFAQKIIDGYQVETPDYWLNSGNPWEIERNEVQIPVTFYGYV 236
Query: 61 MVNPNG-----TRKWVGGEVVQAVAYDIPIPGYKTKNTISLRLWDAKASAEDFNLFQFND 115
G +W+GGE V AVAYD P+PG+KT N +LRLW A+ + +F+L +FN+
Sbjct: 237 DRPEGGKTTLSASQWIGGERVLAVAYDFPVPGFKTSNVNNLRLWQARPT-TEFDLNKFNN 295
Query: 116 GQYESAAQLHSRAQQICAVLYPGDSTEEGKLLRLKQQFFLCSASLQDMILRFKERKSGRQ 175
G Y+++ RA+ I AVLYP D+ +GK LRLKQQ+F C+ASL D++ RFK KS R
Sbjct: 296 GDYKNSVAQQQRAESITAVLYPNDNFAQGKELRLKQQYFWCAASLHDILRRFK--KSKRP 353
Query: 176 WSEFPSKVAVQLNDTHPTLAIPELMRLLMDEEGLGWDEAWDITTRTVAYTNHTVLPEALE 235
W+EFP +VA+QLNDTHPTLAI EL R+L+D E L W EAWDI T+T AYTNHTV+ EALE
Sbjct: 354 WTEFPDQVAIQLNDTHPTLAIVELQRVLVDLEKLDWHEAWDIVTKTFAYTNHTVMQEALE 413
Query: 236 KWSQAVMWKLLPRHMEIIEEIDKRFIAMVRSTRSDLESKIPSMCILDNNPKKPVVRMANL 295
KW + + LLPRH+EII +I+ F+ V + + I++ N + +RMA L
Sbjct: 414 KWPRRLFGHLLPRHLEIIYDINWFFLEDVAKKFPKDVDLLSRISIIEENSPERQIRMAFL 473
Query: 296 CVVSAHTVNGVAQLHSDILKADLFADYVSLW-PNKLQNKTNGITPRRWLRFCNPELSKII 354
+V +H VNGV +LHS+++K +F D++ + P+K N TNGITPRRWL+ NP L+K+I
Sbjct: 474 AIVGSHKVNGVVELHSELIKTTIFKDFIKFYGPSKFVNVTNGITPRRWLKQANPSLAKLI 533
Query: 355 TKWL--KTDQWVTNLDLLVGLRQFADNTELQAEWESAKMASKKHLADYIWR------VTG 406
++ L T++++ ++ L L ++ ++ E +W K+ +K L D I + +
Sbjct: 534 SETLNDPTEEYLLDMAKLTQLEKYVEDKEFLKKWNQVKLNNKIRLVDLIKKENDGVDIIN 593
Query: 407 VTIDPNSLFDIQVKRIHEYKRQLLNILGAIYRYKKLKEMSPQER------KKTTPRTIMI 460
++LFD+QVKRIHEYKRQ LN+ G IYRY +K M +K + +
Sbjct: 594 REYLDDTLFDMQVKRIHEYKRQQLNVFGIIYRYLAMKNMLKNGASIEEVARKYPRKVSIF 653
Query: 461 GGKAFATYTNAKRIVKLVNDVGEVVNTDPEVNSYLKVVFVPNYNVSVAELLIPGSELSQH 520
GGK+ Y AK I+KL+N V ++VN D + LKVVFV +YNVS AE++IP S+LS+H
Sbjct: 654 GGKSAPGYYMAKLIIKLINCVADIVNNDESIEHLLKVVFVADYNVSKAEIIIPASDLSEH 713
Query: 521 ISTAGMEASGTSNMKFSLNGCLIIGTLDGANVEIRQEIGEENFFLFGAVAEQVPKLRKER 580
ISTAG EASGTSNMKF +NG LIIGT+DGANVEI +EIGE+N FLFG ++E V +LR
Sbjct: 714 ISTAGTEASGTSNMKFVMNGGLIIGTVDGANVEITREIGEDNVFLFGNLSENVEELRYNH 773
Query: 581 EDGLFKPDPRFEEAKQFIRSGAFGSYD---YNPLLDSLEGNTGYGRGDYFLVGYDFPSYL 637
+ + +I SG F + + PL+DS++ + GDY+LV DF SYL
Sbjct: 774 QYHPQDLPSSLDSVLSYIESGQFSPENPNEFKPLVDSIKYH-----GDYYLVSDDFESYL 828
Query: 638 EAQDRVDQAYKDQK-KWLKMSILSTAGSGKFSSDRTIAQYAKEIWNIT 684
+ VDQ + +Q+ +WLK S+LS A G FSSDR I +Y+ IWN+
Sbjct: 829 ATHELVDQEFHNQRSEWLKKSVLSLANVGFFSSDRCIEEYSDTIWNVE 876
>2c4m_A Glycogen phosphorylase; allosteric control, phosphate dependence,
starch degrading, transferase, glycosyltransferase; HET:
PLP; 1.9A {Corynebacterium callunae}
Length = 796
Score = 1125 bits (2913), Expect = 0.0
Identities = 300/691 (43%), Positives = 409/691 (59%), Gaps = 31/691 (4%)
Query: 1 MATLNLPAWGYGLRYRYGLFKQKITKQGQEEVAEDWLEKFSPWEVVRHDVVFPVRFFGSV 60
T + P GYGL YR+GLF+Q + Q E + W E+ P+ + R V F
Sbjct: 127 AVTQDYPVTGYGLLYRFGLFRQSFNEGFQVEKPDPWREEEYPFTIRRASDQLVVCF---- 182
Query: 61 MVNPNGTRKWVGGEVVQAVAYDIPIPGYKTKNTISLRLWDAKASAEDFNLFQFNDGQYES 120
+A+ YD+PI GY T N +LRLW A+ E+F+ FN ++
Sbjct: 183 -----------DDMKTRAIPYDMPITGYGTHNVGTLRLWKAEPW-EEFDYDAFNAQRFTD 230
Query: 121 AAQLHSRAQQICAVLYPGDSTEEGKLLRLKQQFFLCSASLQDMILRFKERKSGRQWSEFP 180
A R IC VLYP D+T EGK LR++QQ+F SASLQ MI + S F
Sbjct: 231 AIIERERVSDICRVLYPNDTTYEGKKLRVRQQYFFTSASLQAMIQDHL--AHHKDLSNFA 288
Query: 181 SKVAVQLNDTHPTLAIPELMRLLMDEEGLGWDEAWDITTRTVAYTNHTVLPEALEKWSQA 240
+VQLNDTHP LAIPELMRLLMDE +GW+E+W I ++T AYTNHTVL EALE+W +
Sbjct: 289 EFHSVQLNDTHPVLAIPELMRLLMDEHDMGWEESWAIVSKTFAYTNHTVLTEALEQWDEQ 348
Query: 241 VMWKLLPRHMEIIEEIDKRFIAMVRSTRSDLESKIPSMCILDNNPKKPVVRMANLCVVSA 300
+ +L R EII EID+RF + D E I M + + V MA + +A
Sbjct: 349 IFQQLFWRVWEIIAEIDRRFRLERAADGLD-EETINRMAPIQHG----TVHMAWIACYAA 403
Query: 301 HTVNGVAQLHSDILKADLFADYVSLWPNKLQNKTNGITPRRWLRFCNPELSKIITKWLKT 360
+++NGVA LH++I+KA+ AD+ +LWP K NKTNG+TPRRWLR NP LS ++T+ +
Sbjct: 404 YSINGVAALHTEIIKAETLADWYALWPEKFNNKTNGVTPRRWLRMINPGLSDLLTRLSGS 463
Query: 361 DQWVTNLDLLVGLRQFADNTELQAEWESAKMASKKHLADYIWRVTGVTIDPNSLFDIQVK 420
D WVT+LD L LR +AD+ + E + K A+K+ A++I G+ IDP S+FD+Q+K
Sbjct: 464 DDWVTDLDELKKLRSYADDKSVLEELRAIKAANKQDFAEWILERQGIEIDPESIFDVQIK 523
Query: 421 RIHEYKRQLLNILGAIYRYKKLKEMSPQERKKTTPRTIMIGGKAFATYTNAKRIVKLVND 480
R+HEYKRQL+N L + Y ++KE RT++ G KA Y AK I+KL+N
Sbjct: 524 RLHEYKRQLMNALYVLDLYFRIKED---GLTDIPARTVIFGAKAAPGYVRAKAIIKLINS 580
Query: 481 VGEVVNTDPEVNSYLKVVFVPNYNVSVAELLIPGSELSQHISTAGMEASGTSNMKFSLNG 540
+ ++VN DPEV+ LKVVFV NYNVS AE ++P S++S+ ISTAG EASGTSNMKF +NG
Sbjct: 581 IADLVNNDPEVSPLLKVVFVENYNVSPAEHILPASDVSEQISTAGKEASGTSNMKFMMNG 640
Query: 541 CLIIGTLDGANVEIRQEIGEENFFLFGAVAEQVPKLRKE-REDGLFKPDPRFEEAKQFIR 599
L +GT+DGANVEI +GEEN ++FGA E++P LR+ + L++ P + A +
Sbjct: 641 ALTLGTMDGANVEIVDSVGEENAYIFGARVEELPALRESYKPYELYETVPGLKRALDALD 700
Query: 600 SGAFGSYD---YNPLLDSLEGNTGYGRGDYFLVGYDFPSYLEAQDRVDQAY-KDQKKWLK 655
+G + + L SL G D + V DF Y E +DR+ Y D W +
Sbjct: 701 NGTLNDNNSGLFYDLKHSLIHGYGKDASDTYYVLGDFADYRETRDRMAADYASDPLGWAR 760
Query: 656 MSILSTAGSGKFSSDRTIAQYAKEIWNITEC 686
M+ ++ SG+FSSDRTI YA EIW +
Sbjct: 761 MAWINICESGRFSSDRTIRDYATEIWKLEPT 791
>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 = 62.4 bits (151), Expect = 5e-10
Identities = 89/593 (15%), Positives = 160/593 (26%), Gaps = 242/593 (40%)
Query: 3 TLNLPA--WGYG--LRYRYGLFKQKITKQGQEEVAEDWLEKFSPWEVVRHDVVFPVRFFG 58
L +P + L+ + F + + + + A+D E +P E+V +F G
Sbjct: 19 VLLVPTASFFIASQLQEQ---FNKILPEPTEGFAADD--EPTTPAELV-------GKFLG 66
Query: 59 SVM--VNPNG---------------TRKWVGGEVVQAVAYDIP-------------IPGY 88
V V P+ ++ G + A+A + I Y
Sbjct: 67 YVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNY 126
Query: 89 KTKNTISLR---------LWDAKASAEDFNLF-QFNDGQ-------------YES----A 121
T ++ R L+ A + L F GQ Y++
Sbjct: 127 ITARIMAKRPFDKKSNSALFRA-VGEGNAQLVAIFG-GQGNTDDYFEELRDLYQTYHVLV 184
Query: 122 AQLHSRAQQICAVLYPGDSTEE---GKLLRLKQ----------QFFLCSASLQDMILRFK 168
L + + + L E + L + + + +L S +
Sbjct: 185 GDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPI-------- 236
Query: 169 ERKSGRQWSEFPSKVAVQL---------NDTHPTLAIPELMRLLMDEEGL---------- 209
S P +QL P L +GL
Sbjct: 237 --------S-CPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETD 287
Query: 210 GWDEAWDITTRTVAY-----------TNHTVLPEALEKWSQAVMWKLLPRHM-------- 250
W+ + + + +T LP ++ + S + P M
Sbjct: 288 SWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGV-PSPMLSISNLTQ 346
Query: 251 -EIIEEIDKR----------FIAMVRSTRS--------DLES--------KIPSMCILDN 283
++ + ++K I++V ++ L K PS LD
Sbjct: 347 EQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSG--LDQ 404
Query: 284 N--P---KKPVVRMANLCVVSAHTVNGVAQLHSDILK-------ADLFADYVSLWPNKLQ 331
+ P +K L V++ HS +L DL + VS +Q
Sbjct: 405 SRIPFSERKLKFSNRFL-PVASP-------FHSHLLVPASDLINKDLVKNNVSFNAKDIQ 456
Query: 332 ----NKTNGITPRRWLRFCNPELSKIITKWLKTDQWVTNLDLLVGLRQFADNTELQAEWE 387
+ +G LR + +S+ I + L +WE
Sbjct: 457 IPVYDTFDGSD----LRVLSGSISERIVDCI---------------------IRLPVKWE 491
Query: 388 SAKMASKKHLADY--------------IWRVTGV------TIDPNSLFDIQVK 420
+ H+ D+ TGV T+D N D K
Sbjct: 492 TTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRVIVAGTLDINPDDDYGFK 544
Score = 33.9 bits (77), Expect = 0.21
Identities = 49/321 (15%), Positives = 90/321 (28%), Gaps = 115/321 (35%)
Query: 238 SQAV-MWKLL----PRHMEIIEEIDKRFIAMVRSTRSDLESKIPSMCILDNNPKKPVVRM 292
SQ M L ++ D F + I I+ NNP +
Sbjct: 1626 SQEQGMGMDLYKTSKAAQDVWNRADNHF-------KDTYGFSILD--IVINNPVNLTI-- 1674
Query: 293 ANLCVVSAHTVNGVAQLHSDILKADLFADYVSLWPNKLQNKTNG-ITPRRWLRFCNPELS 351
H G + + +Y ++ + +G + + + N +
Sbjct: 1675 --------H--FGGEKGKR------IRENYSAM---IFETIVDGKLKTEKIFKEINEHST 1715
Query: 352 KIITKWLKTDQWVTNLDLLVGLRQFADNTELQ--------AEWESAKMASKKHLADYIWR 403
+ + LL QF Q A +E +
Sbjct: 1716 SYT--------FRSEKGLL-SATQFT-----QPALTLMEKAAFE-------------DLK 1748
Query: 404 VTGVTIDPNSLF--DIQVKRIH---EY-----KRQLLNILGAI----YRYKKLKEMSPQ- 448
G+ I ++ F H EY +++I + YR ++ P+
Sbjct: 1749 SKGL-IPADATFAG-------HSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRD 1800
Query: 449 ERKKTTPRTIMIGGKAFATYTNAKRIVKLVNDVGEVVNTDPEVNSYLKVVFVPNYNVSVA 508
E ++ I I A + + + +V VG+ +++V NYNV
Sbjct: 1801 ELGRSNYGMIAINPGRVAASFSQEALQYVVERVGK------RTGWLVEIV---NYNV--- 1848
Query: 509 ELLIPGSELSQHISTAG-MEA 528
Q AG + A
Sbjct: 1849 ----EN---QQ-YVAAGDLRA 1861
Score = 28.9 bits (64), Expect = 8.4
Identities = 21/125 (16%), Positives = 43/125 (34%), Gaps = 31/125 (24%)
Query: 503 YNVSVAELLIPGSELSQHISTAGMEASGTSNMKFSLNGCLIIGTLDGANVEIRQEIGEEN 562
Y+V V +L+ +E + ++A K G I+ L+ + +++
Sbjct: 180 YHVLVGDLIKFSAETLSELIRTTLDAE-----KVFTQGLNILEWLENPS-----NTPDKD 229
Query: 563 FFLFGAVAEQVPKLRKEREDGLFKPDPRFEEAKQFIRSGAFG-SYDYNP--LLDSLEGNT 619
+ L ++ P + G+ Q + P L L+G T
Sbjct: 230 YLLSIPIS--CPLI------GVI----------QLAHYVVTAKLLGFTPGELRSYLKGAT 271
Query: 620 GYGRG 624
G+ +G
Sbjct: 272 GHSQG 276
Score = 28.5 bits (63), Expect = 9.7
Identities = 16/87 (18%), Positives = 28/87 (32%), Gaps = 38/87 (43%)
Query: 13 LRYRYGLFKQKITKQGQEEVAEDWLEKFSPWEVVRHDVVFPVRFFGSVMVNPN------- 65
+ YR G+ Q V D E+ R + +G + +NP
Sbjct: 1786 VFYR-GMTMQ-------VAVPRD--------ELGRSN-------YGMIAINPGRVAASFS 1822
Query: 66 --GTRKWV------GGEVVQAVAYDIP 84
+ V G +V+ V Y++
Sbjct: 1823 QEALQYVVERVGKRTGWLVEIVNYNVE 1849
>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 = 54.9 bits (131), Expect = 7e-08
Identities = 71/555 (12%), Positives = 135/555 (24%), Gaps = 203/555 (36%)
Query: 12 GLRYRYGLFKQKITKQ-----GQEEVAEDWLEK-------FSPWEVVRHDVVFPVR---- 55
LR Y I + + + ++ F+ + V R +R
Sbjct: 86 VLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALL 145
Query: 56 ---------FFGSVMVNPNGTRKWVGGEVVQAVAYDIPIPGYKTKNTISLRLWDAKASAE 106
G ++ G+ K V V + + K
Sbjct: 146 ELRPAKNVLIDG--VL---GSGKTW---VALDVCLSYKV---QCKM-------------- 180
Query: 107 DFNLFQFNDGQYESAAQLHSRAQQICAVLYPGDSTEEGKLLRLKQQFFLCSASLQDMILR 166
DF +F N S + Q++ + P ++ +K + S+Q + R
Sbjct: 181 DFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRI----HSIQAELRR 236
Query: 167 FKERKSGRQ--------WS-------EFPSKVAVQLNDTHPTLAIPELMR----LLMDEE 207
+ K + K+ + T + L
Sbjct: 237 LLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSM 296
Query: 208 GLGWDEAWDITTRTVAYTNHTV--LPEALEKWSQAVMWKLLPRHMEIIEEIDKRFIA--- 262
L DE + + Y + LP + + PR + II E + +A
Sbjct: 297 TLTPDEVKSLLLK---YLDCRPQDLPR------EVL--TTNPRRLSIIAESIRDGLATWD 345
Query: 263 ------------MVRSTRSDLES-----------------KIPS--MCILDNNPKKPVVR 291
++ S+ + LE IP+ + ++ + K V
Sbjct: 346 NWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVM 405
Query: 292 -MANLCV-------------VSAH--------TVNGVAQLHSDILKADLFADYVSLW--- 326
+ N +S + LH I+
Sbjct: 406 VVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLI 465
Query: 327 PNKLQN----------KTNGITPR-----------RWLRFCNPELSKIITKWLKTDQWVT 365
P L K R R+L KI + +
Sbjct: 466 PPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLE------QKIRHDSTAWNASGS 519
Query: 366 NLDLLVGLRQFADNTELQAEWESAKMASKKHLADYIWRVTGVTIDPNSLFDIQVKRIHEY 425
L+ L L+ + K ++ D DP ++ + ++
Sbjct: 520 ILNTLQQLKFY-----------------KPYICD---------NDP--KYE---RLVNAI 548
Query: 426 KRQLLNILGAIYRYK 440
L I + K
Sbjct: 549 LDFLPKIEENLICSK 563
Score = 44.5 bits (104), Expect = 1e-04
Identities = 49/275 (17%), Positives = 85/275 (30%), Gaps = 70/275 (25%)
Query: 365 TNLDLL-VGLRQFADNTELQAEWESAKMASKKHLADYIWRVTGVTIDPNSLFDI-QVKRI 422
D+L V F DN + + + K K D+I LF K+
Sbjct: 17 QYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQE 76
Query: 423 HEYKRQLLNILGAIYRYKKLKEMSPQERKKTTPRTIMIGGKAFATYTNAKRIVKLVNDVG 482
++ + +L Y++ L E+++ + T M + + +L ND
Sbjct: 77 EMVQKFVEEVLRINYKF--LMSPIKTEQRQPSMMTRM-----YIEQRD-----RLYNDN- 123
Query: 483 EVVNTDPEVNSYLKVVFVPNYNVS----VAEL------LIPGSELSQHISTAGMEASGTS 532
VF YNVS +L L P + G+ SG +
Sbjct: 124 --------------QVFAK-YNVSRLQPYLKLRQALLELRPAKNVLID----GVLGSGKT 164
Query: 533 NMKFSLNGCLIIGTLDGANVEIRQEIGEENFFL-FG------AVAEQVPKLR-------K 578
+ + + +++ ++ + F+L V E + KL
Sbjct: 165 --------WVALDVC--LSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWT 214
Query: 579 EREDGLFKPDPRFEEAKQFIRSGAFGSYDY-NPLL 612
R D R + +R S Y N LL
Sbjct: 215 SRSDHSSNIKLRIHSIQAELRR-LLKSKPYENCLL 248
>3b0z_B Flagellar biosynthetic protein FLHB; type III secretion system,
protein transport, MEMB protein; 2.45A {Salmonella
enterica subsp}
Length = 114
Score = 32.6 bits (75), Expect = 0.10
Identities = 14/43 (32%), Positives = 22/43 (51%), Gaps = 6/43 (13%)
Query: 550 ANVEIRQEIGEENFFLFGAVAE---QVPKLRKEREDGLFKPDP 589
+ EI Q+I + L+ AVAE V +L++ R G +P
Sbjct: 55 RHAEIGQQIPGQ---LYAAVAEVLAWVWQLKRWRLAGGQRPPQ 94
>2wn4_A ADP-ribosyltransferase enzymatic component; CDTA, ACTIN-ADPRT,
binary toxin; 1.85A {Clostridium difficile} PDB: 2wn5_A
2wn7_A* 2wn8_A 2wn6_A*
Length = 463
Score = 29.9 bits (66), Expect = 3.5
Identities = 14/120 (11%), Positives = 33/120 (27%), Gaps = 10/120 (8%)
Query: 345 FCNPELSKIITKWLKTDQWVTNLDLLVGLRQFADNTELQAEWESAKMASKKHLADYIWRV 404
N ++ + + + T + F + E EWE +K ++
Sbjct: 28 LPNNIYAQDLQSYSEKVCNTTYKAPIERPEDFLKDKEKAKEWE------RKEAERIEQKL 81
Query: 405 TGVTIDPNSLFDIQVKRIHEYKRQLLNILGAIYRY----KKLKEMSPQERKKTTPRTIMI 460
+ + I +Y + K+ KE+ K + + +
Sbjct: 82 ERSEKEALESYKKDSVEISKYSQTRNYFYDYQIEANSREKEYKELRNAISKNKIDKPMYV 141
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 28.8 bits (63), Expect = 3.7
Identities = 6/28 (21%), Positives = 16/28 (57%), Gaps = 3/28 (10%)
Query: 169 ERKSGRQWSEFPSKVAVQLNDTHPTLAI 196
E+++ ++ + + + +D+ P LAI
Sbjct: 18 EKQALKK---LQASLKLYADDSAPALAI 42
>3l9f_A Putative uncharacterized protein SMU.1604C; PADR, transcription
regulator; 1.80A {Streptococcus mutans}
Length = 204
Score = 28.7 bits (64), Expect = 4.9
Identities = 10/37 (27%), Positives = 21/37 (56%), Gaps = 1/37 (2%)
Query: 24 ITKQGQEEVAEDWLEKFSPWEVVRHDVVFPVRFFGSV 60
IT+ G++E+A +L+ E+ + D + + F S+
Sbjct: 105 ITESGKKELAS-YLQSDVNDEIFKSDFLMRLFFGNSL 140
>1a2z_A Pyrrolidone carboxyl peptidase; N-pyroglutamate hydrolysis; 1.73A
{Thermococcus litoralis} SCOP: c.56.4.1
Length = 220
Score = 28.7 bits (63), Expect = 5.3
Identities = 11/72 (15%), Positives = 24/72 (33%), Gaps = 1/72 (1%)
Query: 601 GAFGSYDYNPLLDSLEGNTGYGRGDYFLVGYDFP-SYLEAQDRVDQAYKDQKKWLKMSIL 659
FG NP + G+ + G P S A + + ++ K + +++
Sbjct: 10 EPFGGDSKNPTEQIAKYFDRKQIGNAMVYGRVLPVSVKRATIELKRYLEEIKPEIVINLG 69
Query: 660 STAGSGKFSSDR 671
+ +R
Sbjct: 70 LAPTYSNITVER 81
>3bjv_A RMPA; alpha/beta three layer sandwich, transferase; 2.40A
{Streptococcus mutans}
Length = 161
Score = 28.1 bits (63), Expect = 6.3
Identities = 6/24 (25%), Positives = 13/24 (54%)
Query: 184 AVQLNDTHPTLAIPELMRLLMDEE 207
A + H ++AIP+++ L +
Sbjct: 104 AATSSKIHTSVAIPQIIALFELDH 127
>1yg2_A Gene activator APHA; virulence factor, winged helix, transcripti
factor, transcription; 2.20A {Vibrio cholerae} SCOP:
a.4.5.61
Length = 179
Score = 27.9 bits (62), Expect = 7.4
Identities = 7/37 (18%), Positives = 15/37 (40%), Gaps = 1/37 (2%)
Query: 24 ITKQGQEEVAEDWLEKFSPWEVVRHDVVFPVRFFGSV 60
IT+ G+ + E W ++ + VR + +
Sbjct: 71 ITQAGRSALGE-WFDQPTAHPTVRDEFSAKLMACSVQ 106
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 27.8 bits (61), Expect = 9.3
Identities = 11/50 (22%), Positives = 18/50 (36%), Gaps = 12/50 (24%)
Query: 553 EIRQEIGEENFFLFGAVAEQVPKLRKEREDGLFKPDPRFEEAKQFIRSGA 602
+ QE E + K R+E+ L + D + +Q R A
Sbjct: 79 RLTQE------------PESIRKWREEQRKRLQELDAASKVMEQEWREKA 116
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
0.319 0.135 0.407
Gapped
Lambda K H
0.267 0.0501 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 10,865,612
Number of extensions: 666412
Number of successful extensions: 1547
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1505
Number of HSP's successfully gapped: 21
Length of query: 689
Length of database: 6,701,793
Length adjustment: 100
Effective length of query: 589
Effective length of database: 3,909,693
Effective search space: 2302809177
Effective search space used: 2302809177
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 (21.7 bits)
S2: 61 (27.8 bits)