RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4518
(376 letters)
>1z0k_B FYVE-finger-containing RAB5 effector protein rabenosyn-5; RAB
gtpases, effector complex, vesicular trafficking,
protein transport; HET: GTP MES; 1.92A {Homo sapiens}
SCOP: a.2.19.1
Length = 69
Score = 68.9 bits (168), Expect = 3e-15
Identities = 27/67 (40%), Positives = 43/67 (64%), Gaps = 2/67 (2%)
Query: 302 VSLLEAWSPAGTKSVSSQ--DPLVQQITNIKQFIKEARMAHRYNEVASLENHLKELQEEY 359
+ E W P S+ DPL+QQI NI FI++A+ A R +EV +L+ +L++LQ+EY
Sbjct: 3 LGSAEGWLPLSGGQGQSEDSDPLLQQIHNITSFIRQAKAAGRMDEVRTLQENLRQLQDEY 62
Query: 360 FRRQQEQ 366
++Q E+
Sbjct: 63 DQQQTEK 69
>1z2q_A LM5-1; membrane protein, FYVE domain, zinc-finger; NMR
{Leishmania major}
Length = 84
Score = 67.1 bits (164), Expect = 2e-14
Identities = 19/51 (37%), Positives = 27/51 (52%)
Query: 42 PIKKKNHEQAIVPWLDGKDVPRCPNCSRSFNFAKRQHHCRLCGCIMCHDCS 92
P+ +Q+ W + +D P C C F R+HHCR CG ++C DCS
Sbjct: 2 PLGSMGEKQSKGYWQEDEDAPACNGCGCVFTTTVRRHHCRNCGYVLCGDCS 52
>2yw8_A RUN and FYVE domain-containing protein 1; structure genomics,
structural genomics, NPPSFA; 3.00A {Homo sapiens} PDB:
2yqm_A
Length = 82
Score = 66.7 bits (163), Expect = 2e-14
Identities = 19/50 (38%), Positives = 27/50 (54%)
Query: 43 IKKKNHEQAIVPWLDGKDVPRCPNCSRSFNFAKRQHHCRLCGCIMCHDCS 92
IK+ N WL + C C + F+ ++R+HHCR CG I C+ CS
Sbjct: 1 IKEVNQALKGHAWLKDDEATHCRQCEKEFSISRRKHHCRNCGHIFCNTCS 50
>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 = 73.0 bits (178), Expect = 4e-14
Identities = 65/397 (16%), Positives = 116/397 (29%), Gaps = 99/397 (24%)
Query: 13 RDDRYERFSHEINKLIIRLDKLLTNMPIDPIKKKNHEQA-IVPWLDGKDVPRCPNCSRSF 71
R D I+ + L +LL K K +E +V L +V + +F
Sbjct: 216 RSDHSSNIKLRIHSIQAELRRLL--------KSKPYENCLLV--LL--NV-QNAKAWNAF 262
Query: 72 NFAKRQHHCR-------------LCGCIMCHDCSFFLPLNKARQILVEPELGESQLSASA 118
N C+ L H + L+ L E +S L
Sbjct: 263 NL-----SCKILLTTRFKQVTDFLSAATTTH-----ISLDHHSMTLTPDE-VKSLLLKYL 311
Query: 119 N---SDLNLRLLESREVLKESRNSRPLICDLYDALMG---------KKQEASKLRAMYLE 166
+ DL REVL + P + + K KL + +E
Sbjct: 312 DCRPQDL------PREVLTTN----PRRLSIIAESIRDGLATWDNWKHVNCDKLTTI-IE 360
Query: 167 M-IDSLLAGETMYYASDAQALRVKLVRLAENIDTISNKVTTLSSASGAQQASDSPMTMSQ 225
++ L ++ + + +L + I + LS SD M +
Sbjct: 361 SSLNVL-------EPAEYRKMFDRLSVFPPSAH-IPTIL--LSLIWFDVIKSD-VMVVVN 409
Query: 226 RLHKS---IRQASTNFIRTHLLTLPNVPSDERLAELREERRLAEEARQREEAIRELRGRE 282
+LHK +Q + I + L E L R + + + +
Sbjct: 410 KLHKYSLVEKQPKESTISIPSIYLELKVKLENEYAL--HRSIVDHYNIPKTFDSDDLIPP 467
Query: 283 ENFN-VETHHGRHSVSKEN------------NVSLLEA---WSPAGTKSVSSQDPLVQQI 326
+H G H + E+ + LE + S +QQ+
Sbjct: 468 YLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQL 527
Query: 327 TNIKQFIKEARMAHRYNE--VASLENHLKELQEEYFR 361
K +I + E V ++ + L +++E
Sbjct: 528 KFYKPYICD---NDPKYERLVNAILDFLPKIEENLIC 561
Score = 41.0 bits (95), Expect = 6e-04
Identities = 55/381 (14%), Positives = 118/381 (30%), Gaps = 100/381 (26%)
Query: 49 EQAIVPWLDGKDVPRCPNCSRSFNFAKRQHHCRLCGCIMCHDCSFFL----PLNKARQIL 104
E A V D KDV P +S +K + + ++ ++
Sbjct: 26 EDAFVDNFDCKDVQDMP---KSI-LSKE-------------EIDHIIMSKDAVSGTLRLF 68
Query: 105 VEPEL-GESQLSASANSDL--NLRLLESREVLKESRNSRPLICDLY----DALMGKKQEA 157
E + L N + L S +K + ++ +Y D L Q
Sbjct: 69 WTLLSKQEEMVQKFVEEVLRINYKFLMSP--IKTEQRQPSMMTRMYIEQRDRLYNDNQVF 126
Query: 158 SKL---RA-MYLEMIDSLL---------------AGETMYYASDAQALRVKL-------- 190
+K R YL++ +LL +G+T + +V+
Sbjct: 127 AKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFW 186
Query: 191 --VRLAENIDTISNKVTTLSS--ASGAQQASDSPMTMSQRLHKSIRQASTNFIRTH---- 242
++ + +T+ + L SD + R+H SI+ +++
Sbjct: 187 LNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIH-SIQAELRRLLKSKPYEN 245
Query: 243 -LLTLPNVPSDERLAELREERRLAEEAR----QREEAIRELRGREENFNVETHHGRHSVS 297
LL L NV + + + R + + + ++ H +++
Sbjct: 246 CLLVLLNV-QNAKAWNA-----FNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLT 299
Query: 298 KENNVSLLEAW-------SPAGTKSVSSQDPLVQQITNIKQFIKEARMAHRYNEV----- 345
+ SLL + P + + P ++ I + I++ ++
Sbjct: 300 PDEVKSLLLKYLDCRPQDLPREVLTTN---PRR--LSIIAESIRD--GLATWDNWKHVNC 352
Query: 346 ----ASLENHLKELQEEYFRR 362
+E+ L L+ +R+
Sbjct: 353 DKLTTIIESSLNVLEPAEYRK 373
Score = 40.2 bits (93), Expect = 0.001
Identities = 49/334 (14%), Positives = 103/334 (30%), Gaps = 87/334 (26%)
Query: 71 FNFAKRQHHCRLCGCIMCH---------DCSFFLPLNKARQILVEPELGESQLSASANSD 121
F + Q+ + I+ DC + + IL + E+ + S ++
Sbjct: 9 FETGEHQYQYKD---ILSVFEDAFVDNFDCKDVQ--DMPKSILSKEEIDH--IIMSKDAV 61
Query: 122 LNLRLLESREVLKESRNSRPLICDL----YDALMGKKQEASKLRAM----YLEMIDSLLA 173
L + K+ + + ++ Y LM + + +M Y+E D L
Sbjct: 62 SGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLY- 120
Query: 174 GETMYYASDAQALRVKLVRLAENIDTISNKVTTLSSASGAQQASDSPMTMSQRLH----- 228
+D Q V + + + L A +
Sbjct: 121 -------NDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVL------------IDGVLGS 161
Query: 229 -KSI----------RQASTNFIRTHLLTLPNVPSDERLAELREE--RRLAEEARQREEAI 275
K+ Q +F + L L N S E + E+ ++ ++ R +
Sbjct: 162 GKTWVALDVCLSYKVQCKMDF-KIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHS 220
Query: 276 RELRGREENFNVETHHGRHSVSKENNVSLL---EAWSPAGTKS--------VSSQDPLVQ 324
++ R +++ R SK LL + + ++++ +
Sbjct: 221 SNIKLRIH--SIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRF---K 275
Query: 325 QITNIKQFIKEARMAHRYNEVASLENHLKELQEE 358
Q+T+ F+ A H SL++H L +
Sbjct: 276 QVTD---FLSAATTTHI-----SLDHHSMTLTPD 301
Score = 38.7 bits (89), Expect = 0.003
Identities = 39/304 (12%), Positives = 87/304 (28%), Gaps = 91/304 (29%)
Query: 3 RNHTQRFKTLRDDRYERFSHEINKLIIRLDKLLTNMPIDPIKKKNHEQAIVP-------- 54
R+ + + ++ + I + L+ P + +K ++ P
Sbjct: 338 RDGLATWDNWKHVNCDKLTTIIESSLNVLE------PAE-YRKMFDRLSVFPPSAHIPTI 390
Query: 55 -----WLDGK--DVPRCPNCSRSFNFAKRQ---HHCRLCGCIMCHDCSFFLPLNKARQIL 104
W D DV N ++ ++Q +
Sbjct: 391 LLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISI------PSIYL----------- 433
Query: 105 VEPELGESQLSASANSDLNLRLLESREVLK--ESRNSRPLICDLYD--------ALMGKK 154
E ++ L+ +++ + K +S + P D Y +
Sbjct: 434 ------ELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHP 487
Query: 155 QEASKLRAMYLEMIDSLLAGETMYYASDAQALRVKLVRLAENIDTISNKVTTLSSASG-A 213
+ + R ++L D + L K+ + + + + TL
Sbjct: 488 ERMTLFRMVFL----------------DFRFLEQKIRHDSTAWNASGSILNTLQQLKFYK 531
Query: 214 QQASDSPMTMSQRLH---KSIRQASTNFIR---THLLTLPNVPSDERLAELREERRLAEE 267
D+ + ++ + + N I T LL R+A + E+ + EE
Sbjct: 532 PYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLL---------RIALMAEDEAIFEE 582
Query: 268 A-RQ 270
A +Q
Sbjct: 583 AHKQ 586
Score = 31.7 bits (71), Expect = 0.48
Identities = 26/194 (13%), Positives = 63/194 (32%), Gaps = 42/194 (21%)
Query: 218 DSPMTMSQRLHKSIRQASTNFIRTHLLTLPNVPSDERLAELREERRLAEEAR-------Q 270
M Q+ + + + + F+ + + T PS + + RL + +
Sbjct: 73 SKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVS 132
Query: 271 REEAIRELRG-----REENFNVETH----HGRHSVSKE--NNVSLLEA------WSPAGT 313
R + +LR R NV G+ V+ + + + W
Sbjct: 133 RLQPYLKLRQALLELRPAK-NVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLK- 190
Query: 314 KSVSSQDPLVQQITNIKQFIK---EARMAHRYN---EVASLENHLKELQEEYFRRQQEQQ 367
+ +S + +++ + + I +R H N + S++ L+ L + + +
Sbjct: 191 -NCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRL----LKSKPYEN 245
Query: 368 T-----EVNDSGLV 376
V ++
Sbjct: 246 CLLVLLNVQNAKAW 259
>3t7l_A Zinc finger FYVE domain-containing protein 16; structural genomics
consortium, SGC, lipid BIND protein, transport protein;
1.09A {Homo sapiens}
Length = 90
Score = 64.4 bits (157), Expect = 2e-13
Identities = 22/77 (28%), Positives = 35/77 (45%), Gaps = 11/77 (14%)
Query: 55 WLDGKDVPRCPNCSRSFNFAKRQHHCRLCGCIMCHDCS-FFLPL----NKAR------QI 103
W+ + P C NC F F KR+HHCR CG + C C L +AR +
Sbjct: 14 WVPDSEAPNCMNCQVKFTFTKRRHHCRACGKVFCGVCCNRKCKLQYLEKEARVCVVCYET 73
Query: 104 LVEPELGESQLSASANS 120
+ + + E +S + ++
Sbjct: 74 ISKAQAFERMMSPTGSN 90
>1joc_A EEA1, early endosomal autoantigen 1; FYVE domain, inositol
3-phosphate binding, membrane protein; HET: ITP; 2.20A
{Homo sapiens} SCOP: g.50.1.1 h.1.21.1 PDB: 1hyi_A*
1hyj_A
Length = 125
Score = 62.7 bits (152), Expect = 2e-12
Identities = 16/38 (42%), Positives = 22/38 (57%)
Query: 55 WLDGKDVPRCPNCSRSFNFAKRQHHCRLCGCIMCHDCS 92
W + +V C C + F+ R+HHCR CG I C +CS
Sbjct: 63 WAEDNEVQNCMACGKGFSVTVRRHHCRQCGNIFCAECS 100
>1yzm_A FYVE-finger-containing RAB5 effector protein rabenosyn-5; RAB
GTPase, vesicular trafficking, protein transport; 1.50A
{Homo sapiens} SCOP: a.2.19.1
Length = 51
Score = 59.6 bits (144), Expect = 4e-12
Identities = 22/47 (46%), Positives = 36/47 (76%)
Query: 320 DPLVQQITNIKQFIKEARMAHRYNEVASLENHLKELQEEYFRRQQEQ 366
PL+QQI NI FI++A+ A R +EV +L+ +L++LQ+EY ++Q E+
Sbjct: 5 SPLLQQIHNITSFIRQAKAAGRMDEVRTLQENLRQLQDEYDQQQTEK 51
>1wfk_A Zinc finger, FYVE domain containing 19; riken structural
genomics/proteomics initiative, RSGI, structural
genomics, unknown function; NMR {Mus musculus} SCOP:
g.50.1.1
Length = 88
Score = 60.6 bits (147), Expect = 4e-12
Identities = 10/32 (31%), Positives = 16/32 (50%)
Query: 61 VPRCPNCSRSFNFAKRQHHCRLCGCIMCHDCS 92
RC C+ F K+++ C+ CG C+ C
Sbjct: 9 ESRCYGCAVKFTLFKKEYGCKNCGRAFCNGCL 40
>1x4u_A Zinc finger, FYVE domain containing 27 isoform B;
phosphoinositide binding, zinc binding, structural
genomics, NPPSFA; NMR {Homo sapiens}
Length = 84
Score = 59.9 bits (145), Expect = 7e-12
Identities = 12/46 (26%), Positives = 19/46 (41%), Gaps = 1/46 (2%)
Query: 55 WLDGKDVPRCPNCSRSFNFAKRQHHCRLCGCIMCHDCS-FFLPLNK 99
+ C CS +F+ K++ C CG C C F +P +
Sbjct: 8 RYPTNNFGNCTGCSATFSVLKKRRSCSNCGNSFCSRCCSFKVPKSS 53
>3v1a_A Computational design, MID1-APO1; helix-turn-helix, metal binding,
homodimer, de novo protein, binding protein; 0.98A
{Artificial gene} PDB: 3v1b_A* 3v1c_A* 3v1d_A* 3v1f_A*
3v1e_A
Length = 48
Score = 58.0 bits (140), Expect = 1e-11
Identities = 21/48 (43%), Positives = 30/48 (62%)
Query: 317 SSQDPLVQQITNIKQFIKEARMAHRYNEVASLENHLKELQEEYFRRQQ 364
S PL QQI NI FI +A+ A R +EV +L+ +L +L EYF++
Sbjct: 1 GSGSPLAQQIKNIHSFIHQAKAAGRMDEVRTLQENLHQLMHEYFQQSD 48
>1vfy_A Phosphatidylinositol-3-phosphate binding FYVE domain of protein
VPS27; endosome maturation, intracellular trafficking;
1.15A {Saccharomyces cerevisiae} SCOP: g.50.1.1
Length = 73
Score = 56.2 bits (136), Expect = 1e-10
Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 3/39 (7%)
Query: 54 PWLDGKDVPRCPNCSRSFNFAKRQHHCRLCGCIMCHDCS 92
W+D C CS+ F+ R+HHCR CG + C + S
Sbjct: 7 DWIDSD---ACMICSKKFSLLNRKHHCRSCGGVFCQEHS 42
>3zyq_A Hepatocyte growth factor-regulated tyrosine kinas substrate;
signaling; 1.48A {Homo sapiens} PDB: 4avx_A*
Length = 226
Score = 53.6 bits (128), Expect = 1e-08
Identities = 18/63 (28%), Positives = 23/63 (36%), Gaps = 1/63 (1%)
Query: 36 TNMPIDPIKKKNHEQAIVPWLDGKDVPRCPNCSRSFNFAKRQHHCRLCGCIMCHDCS-FF 94
K+ + A D D C C F R+HHCR CG I C CS +
Sbjct: 139 EGHVFPEFKESDAMFAAERAPDWVDAEECHRCRVQFGVMTRKHHCRACGQIFCGKCSSKY 198
Query: 95 LPL 97
+
Sbjct: 199 STI 201
>1dvp_A HRS, hepatocyte growth factor-regulated tyrosine kinase substrate;
VHS, FYVE, zinc finger, superhelix, transferase; HET:
CIT; 2.00A {Drosophila melanogaster} SCOP: a.118.9.2
g.50.1.1
Length = 220
Score = 53.2 bits (127), Expect = 2e-08
Identities = 14/56 (25%), Positives = 22/56 (39%)
Query: 37 NMPIDPIKKKNHEQAIVPWLDGKDVPRCPNCSRSFNFAKRQHHCRLCGCIMCHDCS 92
+++ + + D C C F F R+HHCR CG + C C+
Sbjct: 137 GHTFPELREADAMFTADTAPNWADGRVCHRCRVEFTFTNRKHHCRNCGQVFCGQCT 192
>1y02_A CARP2, FYVE-ring finger protein sakura; zinc-binding module,
phosphoinositide binding, caspase regulation, metal
binding protein; 1.80A {Homo sapiens} SCOP: a.140.2.1
g.50.1.1
Length = 120
Score = 49.8 bits (118), Expect = 7e-08
Identities = 15/74 (20%), Positives = 18/74 (24%), Gaps = 6/74 (8%)
Query: 54 PWLDGKDVPRCPNCSRSFNFAKRQHHCRLCGCIMCHDCSFFLPLNKAR-----QILVEPE 108
P C +C F R+ C C C C N R Q
Sbjct: 12 FPSPTGLEPSCKSCGAHFANTARKQTCLDCKKNFCMTC-SSQVGNGPRLCLLCQRFRATA 70
Query: 109 LGESQLSASANSDL 122
+L DL
Sbjct: 71 FQREELMKMKVKDL 84
>3mpx_A FYVE, rhogef and PH domain-containing protein 5; structural
genomics consortium, DH domain, SGC, L binding protein;
2.80A {Homo sapiens}
Length = 434
Score = 51.5 bits (123), Expect = 2e-07
Identities = 23/95 (24%), Positives = 37/95 (38%), Gaps = 5/95 (5%)
Query: 13 RDDRYERFSHEINKLIIRLDKLLTNMPIDPIKKKNHEQAIVP--WLDGKDVPRCPNCSRS 70
RD+ Y S + + + ++ ++ P + V C NC
Sbjct: 325 RDEWYGCLSRALPEDYKAQALAAFHHSVEIRERLGVSLGERPPTLVPVTHVMMCMNCGCD 384
Query: 71 FNFAKRQHHCRLCGCIMCHDCS---FFLPLNKARQ 102
F+ R+HHC CG I+C +CS + L K R
Sbjct: 385 FSLTLRRHHCHACGKIVCRNCSRNKYPLKYLKDRM 419
>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 = 47.0 bits (111), Expect = 8e-06
Identities = 60/364 (16%), Positives = 99/364 (27%), Gaps = 132/364 (36%)
Query: 9 FKTLRDDRYERFSHEINKLIIRLDKLLTNMPIDPIK-KKNHEQA--IVPWLDGKD-VPR- 63
F+ LRD Y+ + + LI + L+ + + +K Q I+ WL+ P
Sbjct: 170 FEELRD-LYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDK 228
Query: 64 ---------CP------------NCSRSFNFAKRQHHCRLCGCIMCHDC----------- 91
CP + F + L G
Sbjct: 229 DYLLSIPISCPLIGVIQLAHYVVTA-KLLGFTPGELRSYLKGATGHSQGLVTAVAIAETD 287
Query: 92 ---SFFLPLNKARQIL---------------VEPEL-------GE----SQLSASANSDL 122
SFF+ + KA +L + P + E LS S+L
Sbjct: 288 SWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSI---SNL 344
Query: 123 NLRLLESR-----EVLKESR-------NS-RPLIC-----DLY---------DALMGKKQ 155
++ L + N + L+ LY A G Q
Sbjct: 345 TQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQ 404
Query: 156 -------EASKLRAMYLEMI----DSLLAGETMYYASDAQALRVK-LVRLAENIDTISNK 203
K +L + LL A L K LV+ + + +
Sbjct: 405 SRIPFSERKLKFSNRFLPVASPFHSHLLV--------PASDLINKDLVKNNVSFNAKDIQ 456
Query: 204 VTTLSSASGA--QQASDS------PMTMSQRLHKSIRQASTNFIRTHLLTL-PNVPSDER 254
+ + G+ + S S + + + +T F TH+L P S
Sbjct: 457 IPVYDTFDGSDLRVLSGSISERIVDCIIRLPVK---WETTTQFKATHILDFGPGGAS--G 511
Query: 255 LAEL 258
L L
Sbjct: 512 LGVL 515
Score = 39.3 bits (91), Expect = 0.002
Identities = 51/309 (16%), Positives = 89/309 (28%), Gaps = 99/309 (32%)
Query: 68 SRSFNFAKRQHHCRLCGCIMCHDCSFFLPLN---KARQ-------ILVEPELGESQLSA- 116
+R H G + + +P A Q IL EP G +
Sbjct: 6 TRPLTL----SH----GSL---EHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEP 54
Query: 117 SANSDLNLRLLE--SREVLKESRNSRPLICDLYDALMGKKQEASKLRAMYLEMIDSLLAG 174
+ ++L + L S V +D + L E + L G
Sbjct: 55 TTPAELVGKFLGYVSSLVEPSKVGQ-------FDQV---------LNLCLTEFENCYLEG 98
Query: 175 ETMYYASDAQALRVKLVRLAENIDTISNKVTTLSSASGAQQASDSPMTMSQRLHKS--IR 232
D AL KL L EN T+ + + A+ + P + S R
Sbjct: 99 N------DIHALAAKL--LQENDTTLVKTKELIKNYITARIMAKRPFD---KKSNSALFR 147
Query: 233 QASTNFIRTHLL-----TLPNVPSDERLAELRE--------ERRLAEEARQR-EEAIREL 278
+ + +D+ ELR+ L + + + E IR
Sbjct: 148 AVGEGNAQLVAIFGGQGN-----TDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTT 202
Query: 279 RGREENFNVETHHGRHSVSKENNVSLLEAW--SPAGTKS--------VSSQDPLVQQITN 328
E+ F G + + W +P+ T +S PL+ +
Sbjct: 203 LDAEKVF----TQGLN----------ILEWLENPSNTPDKDYLLSIPISC--PLI-GVIQ 245
Query: 329 IKQFIKEAR 337
+ ++ A+
Sbjct: 246 LAHYVVTAK 254
Score = 36.6 bits (84), Expect = 0.017
Identities = 53/306 (17%), Positives = 96/306 (31%), Gaps = 108/306 (35%)
Query: 115 SASANS-----DLNLRLLESREVLKESRNSRPLICDLYDALMGKKQEASKLRAMYLEMID 169
S +A D + + +L N+ + + GK+ +R Y MI
Sbjct: 1639 SKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKR-----IRENYSAMI- 1692
Query: 170 SLLAGETMYYASDAQALRVKLVRLAENIDTISNKVT------TLSSASGAQQASDSPMTM 223
+ + ++K ++ + I+ S T LS+ Q A M
Sbjct: 1693 ---------FETIVDG-KLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPAL---TLM 1739
Query: 224 SQRLHKSIRQASTNFIRT------H-------LLTLPNVPSDERLAELREER-RLAEEAR 269
+ + ++ S I H L +L +V S E L E+ R + A
Sbjct: 1740 EKAAFEDLK--SKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAV 1797
Query: 270 QR-----------------------EEAIREL---RGREE-------NFNVETHHGRHSV 296
R +EA++ + G+ N+NVE + V
Sbjct: 1798 PRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVE---NQQYV 1854
Query: 297 SKENNVSLLEAWSPAGT-KSVSSQDPLVQQITNIK-QFIKEARMAHRYNEVASLENHLKE 354
+ AG +++ D + + IK Q I + SL L+E
Sbjct: 1855 A-------------AGDLRAL---DTVTNVLNFIKLQKIDIIELQK------SL--SLEE 1890
Query: 355 LQEEYF 360
++ F
Sbjct: 1891 VEGHLF 1896
>1z0j_B FYVE-finger-containing RAB5 effector protein RABE, RAS-related
protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn,
endosomal trafficking; HET: GTP; 1.32A {Homo sapiens}
SCOP: a.2.19.1
Length = 59
Score = 40.9 bits (95), Expect = 2e-05
Identities = 16/45 (35%), Positives = 29/45 (64%)
Query: 319 QDPLVQQITNIKQFIKEARMAHRYNEVASLENHLKELQEEYFRRQ 363
++ L+QQI NIK +I +A+ R +EV L +L+EL+ +++
Sbjct: 11 EELLLQQIDNIKAYIFDAKQCGRLDEVEVLTENLRELKHTLAKQK 55
>2vrw_B P95VAV, VAV1, proto-oncogene VAV; lipoprotein, GTP-binding,
metal-binding, phosphoprotein, exchange factor, RAC,
GTPase, membrane domain; 1.85A {Mus musculus} PDB:
3bji_A 1f5x_A
Length = 406
Score = 44.4 bits (105), Expect = 4e-05
Identities = 8/70 (11%), Positives = 22/70 (31%), Gaps = 4/70 (5%)
Query: 31 LDKLLTNMPIDPIKKKNHEQAIVPWLDGKDVPRCPNCSRSFN-FAKRQHHCRLCGCIMCH 89
+ ++N+ + H+ + + ++ C C + + C C
Sbjct: 330 FEMAISNIYPENATANGHDFQMFSF---EETTSCKACQMLLRGTFYQGYRCYRCRAPAHK 386
Query: 90 DCSFFLPLNK 99
+C +P
Sbjct: 387 ECLGRVPPCG 396
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 38.9 bits (90), Expect = 0.001
Identities = 12/58 (20%), Positives = 17/58 (29%), Gaps = 8/58 (13%)
Query: 38 MPIDPIKKKNHEQAIVPWLDGKDVPRCPNC-SRSFNFAKRQHH----CRLCGCIMCHD 90
M K + P L+ CP C +R C LCG ++
Sbjct: 1 MMTRESIDKRAGR-RGPNLNIVLT--CPECKVYPPKIVERFSEGDVVCALCGLVLSDK 55
>2zet_C Melanophilin; complex, GTP-binding protein, GTPase, G-protein, RAB,
RAB27B, effector, SLP homology domain, acetylation,
lipoprotein, membrane; HET: GTP; 3.00A {Mus musculus}
Length = 153
Score = 38.0 bits (87), Expect = 0.001
Identities = 11/73 (15%), Positives = 26/73 (35%), Gaps = 1/73 (1%)
Query: 30 RLDKLLTNMPIDPIKKKNHEQAIVPWLDGKDVPRCPNCSRSFNFAK-RQHHCRLCGCIMC 88
R ++ I+K++ ++ ++ + C C + + + C C +C
Sbjct: 37 RREEERLQGLKGKIQKESSKRELLSDTAHLNETHCARCLQPYRLLLNSRRQCLECSLFVC 96
Query: 89 HDCSFFLPLNKAR 101
CS P +
Sbjct: 97 KSCSHAHPEEQGW 109
>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 = 36.9 bits (84), Expect = 0.003
Identities = 15/39 (38%), Positives = 18/39 (46%), Gaps = 15/39 (38%)
Query: 153 KKQEASKLRAMYLEMIDSL-LAGETMYYASD-AQALRVK 189
+KQ KL+A SL L YA D A AL +K
Sbjct: 18 EKQALKKLQA-------SLKL------YADDSAPALAIK 43
>1zbd_B Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis,
RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus}
SCOP: g.50.1.1
Length = 134
Score = 36.1 bits (82), Expect = 0.004
Identities = 10/57 (17%), Positives = 17/57 (29%), Gaps = 1/57 (1%)
Query: 44 KKKNHEQAIVPWLDGKDVPRCPNCSRSFNF-AKRQHHCRLCGCIMCHDCSFFLPLNK 99
+ + + + + G V RC C C C +C C N+
Sbjct: 38 RLVDRLETMRKNVAGDGVNRCILCGEQLGMLGSASVVCEDCKKNVCTKCGVETSNNR 94
>3ky9_A Proto-oncogene VAV; calponin homology domain, DBL homology domain,
pleckst homology domain, C1 domain, guanine-nucleotide
releasing FA metal-binding; 2.73A {Homo sapiens} PDB:
2d86_A
Length = 587
Score = 36.2 bits (83), Expect = 0.018
Identities = 9/62 (14%), Positives = 19/62 (30%), Gaps = 7/62 (11%)
Query: 31 LDKLLTNMPIDPIKKKNHEQAIVPWLDGKDVPRCPNCSRSFNFAKRQ----HHCRLCGCI 86
+ ++N+ + H+ + + ++ C C Q H CR
Sbjct: 502 FEMAISNIYPENATANGHDFQMFSF---EETTSCKACQMLLRGTFYQGYRCHRCRASAHK 558
Query: 87 MC 88
C
Sbjct: 559 EC 560
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 34.7 bits (79), Expect = 0.024
Identities = 14/51 (27%), Positives = 24/51 (47%), Gaps = 3/51 (5%)
Query: 253 ERLAELREER--RLAEEARQREEAIRELRGREENFNVETHHGRHSVSKENN 301
E + + REE+ RL E + +E R + + ++E + R S E N
Sbjct: 85 ESIRKWREEQRKRLQELDAASKVMEQEWREKAKK-DLEEWNQRQSEQVEKN 134
Score = 30.9 bits (69), Expect = 0.46
Identities = 18/106 (16%), Positives = 36/106 (33%), Gaps = 31/106 (29%)
Query: 265 AEEARQREEAIRELRGREENFNVETHHGRHSVSKENNVSLLEAWSPAGTKSVSSQDPLVQ 324
A+ Q E+IR+ REE K L+ +S+ +
Sbjct: 77 ADRLTQEPESIRKW--REEQ------------RKR-----LQE------LDAASKVMEQE 111
Query: 325 QITNIKQFIKEARMAHRYNEVASLENHLKE--LQEEYFRRQQEQQT 368
K+ ++E R +E +E + + ++ F +Q +
Sbjct: 112 WREKAKKDLEE--WNQRQSE--QVEKNKINNRIADKAFYQQPDADI 153
Score = 30.1 bits (67), Expect = 0.75
Identities = 9/41 (21%), Positives = 17/41 (41%), Gaps = 6/41 (14%)
Query: 251 SDERLAELREE--RRLAEEARQREEAIR----ELRGREENF 285
S E RE+ + L E +++ E + R ++ F
Sbjct: 105 SKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKAF 145
Score = 28.6 bits (63), Expect = 2.3
Identities = 6/26 (23%), Positives = 15/26 (57%), Gaps = 2/26 (7%)
Query: 252 DERLAELREERRLAEEA--RQREEAI 275
E++ + + R+A++A +Q + I
Sbjct: 128 SEQVEKNKINNRIADKAFYQQPDADI 153
Score = 28.2 bits (62), Expect = 3.3
Identities = 14/57 (24%), Positives = 27/57 (47%), Gaps = 6/57 (10%)
Query: 316 VSSQDPLVQQITNIKQFIKE--ARMAHRYNEVASLENHLKELQ----EEYFRRQQEQ 366
++ D L Q+ +I+++ +E R+ +E +E EE+ +RQ EQ
Sbjct: 74 IAQADRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQ 130
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 35.5 bits (82), Expect = 0.031
Identities = 22/130 (16%), Positives = 47/130 (36%), Gaps = 11/130 (8%)
Query: 253 ERLAELREERRLAEEARQREEAIR-----ELRGREENFNVETHHGRHSVSKENNVSLLEA 307
+A+ RE ++L EAR E + E + + ++ + + E +L
Sbjct: 899 RMMAK-RELKKLKIEARSVERYKKLHIGLENKIMQLQRKIDEQNKEYKSLLEKMNNLEIT 957
Query: 308 WSPAGTKSVSSQDPLVQQITNIKQFIK-----EARMAHRYNEVASLENHLKELQEEYFRR 362
+S K S + L K + +A E+ + K ++E +
Sbjct: 958 YSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWADKY 1017
Query: 363 QQEQQTEVND 372
+ E + V++
Sbjct: 1018 KHETEQLVSE 1027
>1z60_A TFIIH basal transcription factor complex P44 subunit; basic
transcription factor, zinc binding protein, ring
finger; NMR {Homo sapiens} SCOP: g.49.1.2
Length = 59
Score = 30.2 bits (68), Expect = 0.15
Identities = 9/43 (20%), Positives = 16/43 (37%), Gaps = 1/43 (2%)
Query: 53 VPWLDGKDVPRCPNCSRSFNFAKRQHHCRLCGCIMCHDCSFFL 95
+P + C C + + C +C + C DC F+
Sbjct: 7 IPLEEYNGERFCYGCQGELK-DQHVYVCAVCQNVFCVDCDVFV 48
>3dpl_R Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST-virus
interaction, receptor, UBL conjugation, UBL conjugation
pathway, acetylation, cytoplasm; 2.60A {Homo sapiens}
SCOP: g.44.1.1 PDB: 3dqv_R 3rtr_B 1u6g_B 2hye_D* 4a0c_D
4a0l_F* 1ldj_B 1ldk_C 2lgv_A
Length = 106
Score = 30.2 bits (67), Expect = 0.31
Identities = 11/31 (35%), Positives = 14/31 (45%), Gaps = 2/31 (6%)
Query: 48 HEQAIVPWLDGKDVPRCPNCSRSFNFAKRQH 78
H I WL + V CP +R + F K H
Sbjct: 78 HFHCISRWLKTRQV--CPLDNREWEFQKYGH 106
>3qa8_A MGC80376 protein; kinase ubiquitin-like domain, phosphorylation,
kinase domain ubiquitin-like domain, kinase, substrate
binding; 3.60A {Xenopus laevis} PDB: 3qad_A* 3rzf_A*
Length = 676
Score = 30.8 bits (69), Expect = 0.78
Identities = 38/274 (13%), Positives = 87/274 (31%), Gaps = 33/274 (12%)
Query: 107 PELGESQLSASANSDLNLRLLESREVLKESRNSRPLICDLYDALMGKKQEASKLRAMYLE 166
P ES + L R V + + + + L + + + L
Sbjct: 405 PAHPESVSIVLQDPKRPLTYTHLRRVWGQIWQTIRALKEDCARL----LQGQRTSMVNLL 460
Query: 167 MIDSLLAGETMYYASDAQALRVKLVRLAENIDTISNKVTTLSSASGAQQASDSPMTMSQR 226
++ L+ + S+ + L+ KL +I K + + S ++
Sbjct: 461 RYNTELSKKKNSMTSECEQLKAKLDFFRSSIQIDLEKYSEQMEFGITSEKLLSAWREMEQ 520
Query: 227 LHKSIRQAS--------TNFIRTHLLTLPNVPSDERLAELREERRLAEEARQREEAIREL 278
+ + ++T + L P + ++ L E+AR +RE
Sbjct: 521 AVELCGREREVQALVDKMMALQTDSVDLQRNPLGRKHRGTLDD--LEEQARDLYRRLRER 578
Query: 279 RGREENFNVETHHGRHSVSKENNVSLLEAWSPAGTKSVSSQDPLVQQITN--IKQFIKEA 336
+ R + ++ S + V I + K + +
Sbjct: 579 PRDQRTPGDSNDMVRLLI-----------------LAIQSFEKRVILIYDQLSKTVVCKR 621
Query: 337 RMAHRYNEVASLENHLKELQEEYFRRQQEQQTEV 370
+ +V + N ++E ++ RRQ+++Q E+
Sbjct: 622 KALELSPKVKEVMNLMREDEKIVVRRQEKRQQEL 655
>2ecl_A Ring-box protein 2; RNF7, ring domian, zinc-binding domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 81
Score = 28.3 bits (63), Expect = 0.96
Identities = 7/28 (25%), Positives = 12/28 (42%), Gaps = 2/28 (7%)
Query: 48 HEQAIVPWLDGKDVPRCPNCSRSFNFAK 75
H + W+ K RCP C + + +
Sbjct: 53 HNCCMSLWV--KQNNRCPLCQQDWVVQR 78
>1pcx_A Protein transport protein SEC24; 2.50A {Saccharomyces cerevisiae}
SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 PDB:
1pd0_A 1pd1_A
Length = 810
Score = 30.4 bits (67), Expect = 1.3
Identities = 16/93 (17%), Positives = 29/93 (31%), Gaps = 7/93 (7%)
Query: 40 IDPIKKKNHEQAIVPWLDGKDVPRCPNCSRSFN----FAKRQHHCRLCGCIMCHDCS--- 92
I P + + P + + RC C N F ++ R C + +D
Sbjct: 91 IRPYQHLYDDIDPPPLNEDGLIVRCRRCRSYMNPFVTFIEQGRRWRCNFCRLANDVPMQM 150
Query: 93 FFLPLNKARQILVEPELGESQLSASANSDLNLR 125
N + E+ + + A + LR
Sbjct: 151 DQSDPNDPKSRYDRNEIKCAVMEYMAPKEYTLR 183
>4a0k_B E3 ubiquitin-protein ligase RBX1; ligase-DNA-binding protein-DNA
complex, DNA-binding protein- complex; HET: DNA 3DR;
5.93A {Mus musculus}
Length = 117
Score = 28.7 bits (63), Expect = 1.3
Identities = 11/31 (35%), Positives = 14/31 (45%), Gaps = 2/31 (6%)
Query: 48 HEQAIVPWLDGKDVPRCPNCSRSFNFAKRQH 78
H I WL + V CP +R + F K H
Sbjct: 89 HFHCISRWLKTRQV--CPLDNREWEFQKYGH 117
>3q01_A Cellular tumor antigen P53; beta sandwich, multidomain,
oligomerization, TP53, TUMO suppressor, dimer, DNA
binding, antitumor protein; 2.10A {Homo sapiens} PDB:
3q05_A* 3ts8_A 3q06_A* 1a1u_A
Length = 233
Score = 29.6 bits (66), Expect = 1.4
Identities = 19/103 (18%), Positives = 32/103 (31%), Gaps = 22/103 (21%)
Query: 19 RFSHEINKLIIRLDKLLT------NMPIDPI--------KKKNHEQAIVPWLDGKDVPRC 64
+S +NK+ ++L K + + P K+ H +V RC
Sbjct: 32 TYSPALNKMFVQLAKTVPVQLYVDSTPPPGTRVRAMAIYKQSQHMTEVVR--------RC 83
Query: 65 PNCSRSFNFAKRQHHCRLCGCIMCHDCSFFLPLNKARQILVEP 107
P+ RS + L + N R +V P
Sbjct: 84 PHHERSSDSDGLAPPQHLIRVEGNLRAEYLDDPNTFRHSVVVP 126
>1y7u_A Acyl-COA hydrolase; structural genomics, coenzyme A, protein
structure initiative, PSI, midwest center for structural
GE MCSG; HET: COA; 2.80A {Bacillus cereus} SCOP:
d.38.1.1
Length = 174
Score = 28.8 bits (65), Expect = 2.1
Identities = 5/27 (18%), Positives = 8/27 (29%)
Query: 260 EERRLAEEARQREEAIRELRGREENFN 286
EE+ A R E + +
Sbjct: 143 EEKESHRIAVLRAEQRHIRKAESKKVA 169
>1uty_A Non-structural protein 2; viral protein, RNA binding protein; 2.4A
{Bluetongue virus} SCOP: b.147.1.1
Length = 187
Score = 28.2 bits (62), Expect = 3.3
Identities = 14/50 (28%), Positives = 23/50 (46%), Gaps = 1/50 (2%)
Query: 237 NFIRTHLLTLPNV-PSDERLAELREERRLAEEARQREEAIRELRGREENF 285
+F R + LP V S+ + ELR++ + E+ R + R EN
Sbjct: 135 DFDRNEMPDLPGVMRSNYDIRELRQKIKNERESAPRLQVHSVARPGSENL 184
>2q1f_A Chondroitinase; alpha plus beta, lyase; 2.85A {Bacteroides
thetaiotaomicron}
Length = 1022
Score = 28.7 bits (63), Expect = 4.0
Identities = 11/66 (16%), Positives = 20/66 (30%), Gaps = 4/66 (6%)
Query: 286 NVETHHGRHSVS----KENNVSLLEAWSPAGTKSVSSQDPLVQQITNIKQFIKEARMAHR 341
+ + +S K+ SL + P G + ++ K A +
Sbjct: 33 CITGVQSQLGISGAHYKDGKHSLEWTFEPNGRLELRKDLKFEKKDPTGKDLYLSAFIVWI 92
Query: 342 YNEVAS 347
YNE
Sbjct: 93 YNEQPQ 98
>3d06_A Cellular tumor antigen P53; mutant protein, loop-sheet-helix motif,
acetylation, activator, alternative splicing,
anti-oncogene, apoptosis; 1.20A {Homo sapiens} PDB:
3d05_A 3d07_A 2ac0_A 2ady_A 2ahi_A 2ata_A 2ybg_A 3igl_A*
3kz8_A* 2ocj_A 1tup_A* 1tsr_A 3d08_A 3d0a_A* 3igk_A*
2xwr_A 2fej_A 2h1l_M 1ycs_A 3d09_A ...
Length = 200
Score = 27.7 bits (61), Expect = 4.8
Identities = 18/103 (17%), Positives = 29/103 (28%), Gaps = 22/103 (21%)
Query: 19 RFSHEINKLIIRLDKLLT------NMPIDPI--------KKKNHEQAIVPWLDGKDVPRC 64
+S +NK+ +L K + P K+ H +V RC
Sbjct: 32 TYSPALNKMFCQLAKTCPVQLWVDSTPPPGTRVRAMAIYKQSQHMTEVVR--------RC 83
Query: 65 PNCSRSFNFAKRQHHCRLCGCIMCHDCSFFLPLNKARQILVEP 107
P+ R + L + N R +V P
Sbjct: 84 PHHERCSDSDGLAPPQHLIRVEGNLRVEYLDDRNTFRHSVVVP 126
>3asl_A E3 ubiquitin-protein ligase UHRF1; histone reader module,
epigenetic regulation, LI binding protein complex;
1.41A {Homo sapiens} PDB: 3sou_A 3sow_A* 3sox_A 3zvy_A
2lgg_A 2lgk_A* 2lgl_A 3t6r_A 3zvz_B
Length = 70
Score = 25.9 bits (57), Expect = 5.0
Identities = 9/29 (31%), Positives = 12/29 (41%), Gaps = 5/29 (17%)
Query: 62 PRCPNCSRSFNFAKRQHHCRLCGCIMCHD 90
P C +C N CR+C C +C
Sbjct: 3 PSCKHCKDDVNR-----LCRVCACHLCGG 26
>2ct0_A Non-SMC element 1 homolog; ring domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 74
Score = 26.0 bits (57), Expect = 5.2
Identities = 6/26 (23%), Positives = 11/26 (42%)
Query: 48 HEQAIVPWLDGKDVPRCPNCSRSFNF 73
H + + PRCP+C+ +
Sbjct: 39 HLPCVAKYFQSNAEPRCPHCNDYWPH 64
>2eod_A TNF receptor-associated factor 4; zinc binding, NF-KB, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; NMR {Homo sapiens}
Length = 66
Score = 25.7 bits (56), Expect = 5.6
Identities = 9/32 (28%), Positives = 13/32 (40%), Gaps = 3/32 (9%)
Query: 63 RCPNCSRSFNFAKRQHHCRLCGC--IMC-HDC 91
C C++ F F Q H C + C + C
Sbjct: 12 PCTYCTKEFVFDTIQSHQYQCPRLPVACPNQC 43
>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB,
proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR
binding; 3.65A {Bacillus subtilis}
Length = 468
Score = 27.9 bits (63), Expect = 6.0
Identities = 8/55 (14%), Positives = 24/55 (43%)
Query: 322 LVQQITNIKQFIKEARMAHRYNEVASLENHLKELQEEYFRRQQEQQTEVNDSGLV 376
L Q++ +++ A + + + ASL + + L+E+ ++ + +
Sbjct: 399 LEQKLDEVRKEKDAAVQSQEFEKAASLRDTEQRLREQVEDTKKSWKEKQGQENSE 453
>1q1a_A HST2 protein; ternary complex, histone deacetylase, 2'-O-ADP
ribose,, gene regulation; HET: ALY OAD; 1.50A
{Saccharomyces cerevisiae} SCOP: c.31.1.5 PDB: 1szd_A*
1szc_A* 2od7_A* 2od9_A* 2qqf_A* 2qqg_A* 1q17_A* 2od2_A*
Length = 289
Score = 27.8 bits (62), Expect = 6.3
Identities = 11/79 (13%), Positives = 18/79 (22%), Gaps = 17/79 (21%)
Query: 63 RCPNCSRSFNFA-----------KRQHHCRLCGCIMCHDCSFF---LP---LNKARQILV 105
C C + + K C +CG ++ FF LP
Sbjct: 138 HCIGCGKVYPPQVFKSKLAEHPIKDFVKCDVCGELVKPAIVFFGEDLPDSFSETWLNDSE 197
Query: 106 EPELGESQLSASANSDLNL 124
+ L +
Sbjct: 198 WLREKITTSGKHPQQPLVI 216
>2xzm_6 RPS27E; ribosome, translation; 3.93A {Tetrahymena thermophila}
PDB: 2xzn_6
Length = 81
Score = 25.9 bits (57), Expect = 6.3
Identities = 15/63 (23%), Positives = 28/63 (44%), Gaps = 6/63 (9%)
Query: 31 LDKLLTNMPIDPIKKKNHEQAIVPWLDGK--DVPRCPNCSRS---FNFAKRQHHCRLCGC 85
+++ L N + K+KN + ++ + DV +C C F+ A+ C C
Sbjct: 1 MERDLLNPIYEEEKQKNKFKRLIQAPNSYFMDV-KCAQCQNIQMIFSNAQSTIICEKCSA 59
Query: 86 IMC 88
I+C
Sbjct: 60 ILC 62
>1e4u_A Transcriptional repressor NOT4; gene regulation, transcriptional
control; NMR {Homo sapiens} SCOP: g.44.1.1 PDB: 1ur6_B
Length = 78
Score = 25.8 bits (56), Expect = 6.7
Identities = 8/35 (22%), Positives = 10/35 (28%)
Query: 57 DGKDVPRCPNCSRSFNFAKRQHHCRLCGCIMCHDC 91
+D CP C CG +C C
Sbjct: 7 AKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFC 41
>2bs2_A Quinol-fumarate reductase flavoprotein subunit A; 2Fe-2S, 3Fe-4S,
4Fe-4S, citric acid cycle, dihaem cytochrome B; HET: FAD
HEM LMT; 1.78A {Wolinella succinogenes} SCOP: a.7.3.1
c.3.1.4 d.168.1.1 PDB: 2bs3_A* 1e7p_A* 2bs4_A* 1qlb_A*
Length = 660
Score = 27.7 bits (62), Expect = 7.4
Identities = 11/107 (10%), Positives = 30/107 (28%), Gaps = 17/107 (15%)
Query: 213 AQQASDSPMTMSQRLHKSIRQASTNFIRTHLLTLPNVPSDERLAELREE----------- 261
+ ++ L + ++ +L E + +++
Sbjct: 421 GEYFAEHCANTQVDLETKTLEKFVKGQEAYMKSLVESKGTEDVFKIKNRMKDVMDDNVGI 480
Query: 262 RRLAEEARQREEAIRELRGREENFNVETHHGRHSVSKENNVSLLEAW 308
R + + + EL + +N ++ N L EA+
Sbjct: 481 FRDGPHLEKAVKELEELYKKSKNVGIKNK------RLHANPELEEAY 521
>3glr_A NAD-dependent deacetylase sirtuin-3, mitochondria; NAD dependent
deacetylase, sirtuin, substrate peptide comple
hydrolase, metal-binding; HET: ALY; 1.80A {Homo sapiens}
PDB: 3gls_A 3glt_A* 3glu_A
Length = 285
Score = 27.3 bits (61), Expect = 7.5
Identities = 11/40 (27%), Positives = 14/40 (35%), Gaps = 8/40 (20%)
Query: 63 RCPNCSRSFN--------FAKRQHHCRLCGCIMCHDCSFF 94
C C R F A R C +C ++ D FF
Sbjct: 141 TCTVCQRPFPGEDIRADVMADRVPRCPVCTGVVKPDIVFF 180
>2yur_A Retinoblastoma-binding protein 6; P53-associated cellular protein
of testis, proliferation potential-related protein,
protein P2P-R; NMR {Homo sapiens}
Length = 74
Score = 25.5 bits (56), Expect = 7.6
Identities = 6/20 (30%), Positives = 8/20 (40%)
Query: 52 IVPWLDGKDVPRCPNCSRSF 71
I L D CP C ++
Sbjct: 43 IRTALLESDEHTCPTCHQND 62
>1t0f_A Transposon TN7 transposition protein TNSA; protein-protein
complex, mixed alpha-beta, DNA binding protein; 1.85A
{Escherichia coli} SCOP: a.4.5.27 c.52.1.16 PDB: 1f1z_A
Length = 276
Score = 27.3 bits (60), Expect = 7.9
Identities = 9/29 (31%), Positives = 14/29 (48%), Gaps = 1/29 (3%)
Query: 53 VPWLDGKDVPRCPNCSRSFNF-AKRQHHC 80
+PWL ++VP R ++ R HH
Sbjct: 33 IPWLTVQEVPSSGRSHRIYSHKTGRVHHL 61
>2hwg_A Phosphoenolpyruvate-protein phosphotransferase; enzyme I,
phosphoenolpyruvate:sugar phosphotransferase system,
PTS; HET: NEP; 2.70A {Escherichia coli} PDB: 2kx9_A
2xdf_A 2l5h_A
Length = 575
Score = 27.5 bits (62), Expect = 7.9
Identities = 4/29 (13%), Positives = 14/29 (48%)
Query: 250 PSDERLAELREERRLAEEARQREEAIREL 278
P++E + ++R + + +++L
Sbjct: 231 PTNEVIDKMRAVQEQVASEKAELAKLKDL 259
>3hcs_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha,
coiled coil, cytoplasm, metal- binding, UBL conjugation,
UBL conjugation pathway; 2.20A {Homo sapiens}
Length = 170
Score = 27.0 bits (59), Expect = 7.9
Identities = 8/31 (25%), Positives = 12/31 (38%), Gaps = 2/31 (6%)
Query: 63 RCPNCSRSFNFAKRQHHCRLC--GCIMCHDC 91
C NC+ S F ++ H + C H
Sbjct: 139 SCDNCAASMAFEDKEIHDQNCPLALEHHHHH 169
>3plt_A Sphingolipid long chain base-responsive protein L; eisosomes, LSP1,
PIL1, BAR domain, plasma membrane, SELF-ASS
phosphoprotein; 2.90A {Saccharomyces cerevisiae}
Length = 234
Score = 27.3 bits (60), Expect = 8.1
Identities = 17/91 (18%), Positives = 31/91 (34%), Gaps = 11/91 (12%)
Query: 195 ENIDTISNKVTTLSSASGAQQASDSPMTMSQRLH-KSIRQASTNF--IRTHLLTLPN--- 248
+++ +++K+ L G Q R+ KSIR + R + +
Sbjct: 62 DDVSDVTDKLGVLIYELGELQDQFIDKYDQYRVTLKSIRNIEASVQPSRDRKEKITDEIA 121
Query: 249 -----VPSDERLAELREERRLAEEARQREEA 274
P ++ L +E AE EA
Sbjct: 122 HLKYKDPQSTKIPVLEQELVRAEAESLVAEA 152
>2q2b_A Cytosolic acyl coenzyme A thioester hydrolase; ACOT7, C-terminal
domain; 2.50A {Mus musculus}
Length = 179
Score = 26.9 bits (60), Expect = 8.1
Identities = 5/23 (21%), Positives = 11/23 (47%)
Query: 260 EERRLAEEARQREEAIRELRGRE 282
+E++ EE + R ++ R
Sbjct: 152 DEKKRFEEGKGRYLQMKAKRQGH 174
>1m6b_A C-ER, receptor protein-tyrosine kinase ERBB-3; cell surface
receptor, immunity, signaling transferase; HET: NAG NDG;
2.60A {Homo sapiens} SCOP: c.10.2.5 c.10.2.5 g.3.9.1
g.3.9.1 PDB: 3p11_A*
Length = 621
Score = 27.7 bits (60), Expect = 8.4
Identities = 7/37 (18%), Positives = 10/37 (27%)
Query: 63 RCPNCSRSFNFAKRQHHCRLCGCIMCHDCSFFLPLNK 99
C +C + C G C C+ F
Sbjct: 529 ECFSCHPECQPMEGTATCNGSGSDTCAQCAHFRDGPH 565
>2kkm_A Translation machinery-associated protein 16; nucleus, structural
genomics, PSI-2, protein structure initiative; NMR
{Saccharomyces cerevisiae}
Length = 144
Score = 26.8 bits (59), Expect = 8.5
Identities = 15/59 (25%), Positives = 25/59 (42%), Gaps = 5/59 (8%)
Query: 252 DERLAELREERRLAEEARQREEAIRELRGREENFNVETHHGRH--SVSKENNVSLLEAW 308
D L EL+++RR R+ +++ R +E E G +S N+ L W
Sbjct: 62 DTELDELKKKRRSNRPPSNRQVLLQQRRDQELK---EFKAGFLCPDLSDAKNMEFLRNW 117
>2qq2_A Cytosolic acyl coenzyme A thioester hydrolase; ACOT7, C-terminal
domain, thioesterase, structural genomics, structural
genomics consortium, SGC; 2.80A {Homo sapiens}
Length = 193
Score = 27.0 bits (60), Expect = 9.3
Identities = 5/25 (20%), Positives = 11/25 (44%)
Query: 260 EERRLAEEARQREEAIRELRGREEN 284
+E++ EE + R ++ R
Sbjct: 168 DEKKRFEEGKGRYLQMKAKRQGHAE 192
>2d9k_A FLN29 gene product; zinc finger, ZF-TRAF, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 75
Score = 25.3 bits (55), Expect = 9.4
Identities = 8/31 (25%), Positives = 13/31 (41%), Gaps = 2/31 (6%)
Query: 63 RCPNCSRSFNFAKRQHHCRLCGC--IMCHDC 91
C +C + K + H CG +C +C
Sbjct: 19 VCQHCDLELSILKLKEHEDYCGARTELCGNC 49
>1kf6_A Fumarate reductase flavoprotein; respiration, fumarate reductace,
succinate dehydrogenase, CO quinol, quinone,
oxidoreductase; HET: FAD HQO CE1 1PE; 2.70A {Escherichia
coli} SCOP: a.7.3.1 c.3.1.4 d.168.1.1 PDB: 1kfy_A*
1l0v_A* 2b76_A* 3cir_A* 3p4p_A* 3p4q_A* 3p4r_A* 3p4s_A*
Length = 602
Score = 27.3 bits (61), Expect = 9.7
Identities = 17/92 (18%), Positives = 32/92 (34%), Gaps = 17/92 (18%)
Query: 228 HKSIRQASTNFIRTHLLTLPNVPSDERLAELREE-----------RRLAEEARQREEAIR 276
+++ +A + L L N E A++R+E R E ++ + +
Sbjct: 422 NEAAIEAQAAGVEQRLKDLVNQDGGENWAKIRDEMGLAMEEGCGIYRTPELMQKTIDKLA 481
Query: 277 ELRGREENFNVETHHGRHSVSKENNVSLLEAW 308
EL+ R + + S N LL
Sbjct: 482 ELQERFKRVRITDT------SSVFNTDLLYTI 507
>2wqd_A Phosphoenolpyruvate-protein phosphotransferase; kinase, cytoplasm,
transport, magnesium, PEP- utilising enzyme,
phosphotransferase system; 2.40A {Staphylococcus aureus}
PDB: 2hro_A
Length = 572
Score = 27.1 bits (61), Expect = 9.9
Identities = 4/29 (13%), Positives = 15/29 (51%)
Query: 250 PSDERLAELREERRLAEEARQREEAIREL 278
P+++ L +++R ++ + +R+
Sbjct: 233 PTEDELIAYQDKRERYFADKKELQKLRDA 261
>2hbv_A 2-amino-3-carboxymuconate 6-semialdehyde decarbox; ACMSD,
TIM-barrel, decarboxylase, metaloenzyme, lyase; 1.65A
{Pseudomonas fluorescens} SCOP: c.1.9.15 PDB: 2hbx_A
Length = 334
Score = 27.0 bits (60), Expect = 9.9
Identities = 4/27 (14%), Positives = 8/27 (29%)
Query: 337 RMAHRYNEVASLENHLKELQEEYFRRQ 363
R+ + + + EY R
Sbjct: 239 RVDNAWRHRDIVREDCPRPPSEYVDRF 265
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 0.130 0.365
Gapped
Lambda K H
0.267 0.0807 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,482,902
Number of extensions: 326268
Number of successful extensions: 1436
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1406
Number of HSP's successfully gapped: 119
Length of query: 376
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 281
Effective length of database: 4,049,298
Effective search space: 1137852738
Effective search space used: 1137852738
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: 58 (26.0 bits)