RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6552
(254 letters)
>1u5t_A Appears to BE functionally related to SNF7; SNF8P; ESCRT,
endosomal, trafficking, protein complex, transport
protein; 3.60A {Saccharomyces cerevisiae} SCOP: a.4.5.54
a.4.5.54 PDB: 1w7p_A
Length = 233
Score = 298 bits (765), Expect = e-103
Identities = 79/243 (32%), Positives = 123/243 (50%), Gaps = 13/243 (5%)
Query: 3 RRAGVGAIQKQKLEQEKYKDKGTSIQENQLEQLSQHLNTFRDKLESFASEYKNEIKKDAQ 62
++ G+ A + K KY D +I E Q +L L F+++L FA ++ +E++ +
Sbjct: 2 KQFGLAAFDELK--DGKYNDVNKTILEKQSVELRDQLMVFQERLVEFAKKHNSELQASPE 59
Query: 63 FRRHFQEMCASIGVDPLASRKGFWSLLGMGDFYYELSVQIVEVCLATNYKNGGLILLDEL 122
FR F MC+SIG+DPL+ L + DFYYE+ ++++E+C T NGG+I EL
Sbjct: 60 FRSKFMHMCSSIGIDPLSLFDRDKHLFTVNDFYYEVCLKVIEICRQTKDMNGGVISFQEL 119
Query: 123 RTRLVKSRGKSLQHQDITNEDLLAAAKKLKIFGNGFSIIPIGQGQYLVQSIPGELSLDHS 182
+ ++ +DL + LK F I I G+ ++S+P EL+ D +
Sbjct: 120 EKVHFRKL-------NVGLDDLEKSIDMLKSLE-CFEIFQIR-GKKFLRSVPNELTSDQT 170
Query: 183 LVLQQVASKNEAHISVSVLNNELNWSTERAQHALDFMVQEGYAWIDTQSPQEHLYWFPSL 242
+L+ + S+S+L L W R++ ALD MV G WID Q E LYW PS
Sbjct: 171 KILE--ICSILGYSSISLLKANLGWEAVRSKSALDEMVANGLLWIDYQGGAEALYWDPSW 228
Query: 243 FTE 245
T
Sbjct: 229 ITR 231
>3cuq_A Vacuolar-sorting protein SNF8; ESCRT, MBV, VPS, nucleus, protein
transport, transc transcription regulation, transport,
endosome; 2.61A {Homo sapiens} PDB: 2zme_A
Length = 234
Score = 291 bits (746), Expect = e-100
Identities = 120/228 (52%), Positives = 169/228 (74%), Gaps = 6/228 (2%)
Query: 24 GTSIQENQLEQLSQHLNTFRDKLESFASEYKNEIKKDAQFRRHFQEMCASIGVDPLASRK 83
GT + E+QL Q+S+ L+ F+ LE FAS++K EI+K+ +FR FQ+MCA+IGVDPLAS K
Sbjct: 1 GTVLAEDQLAQMSKQLDMFKTNLEEFASKHKQEIRKNPEFRVQFQDMCATIGVDPLASGK 60
Query: 84 GFWS-LLGMGDFYYELSVQIVEVCLATNYKNGGLILLDELRTRLVKSRGKSLQHQDITNE 142
GFWS +LG+GDFYYEL VQI+EVCLA ++NGGLI L+EL +++K RGK QD++ +
Sbjct: 61 GFWSEMLGVGDFYYELGVQIIEVCLALKHRNGGLITLEELHQQVLKGRGKF--AQDVSQD 118
Query: 143 DLLAAAKKLKIFGNGFSIIPIGQGQYLVQSIPGELSLDHSLVLQQVASKNEAHISVSVLN 202
DL+ A KKLK G GF IIP+G G YL+QS+P EL++DH++VLQ ++ +++VS +
Sbjct: 119 DLIRAIKKLKALGTGFGIIPVG-GTYLIQSVPAELNMDHTVVLQ--LAEKNGYVTVSEIK 175
Query: 203 NELNWSTERAQHALDFMVQEGYAWIDTQSPQEHLYWFPSLFTECMNAE 250
L W TERA+ L+ +++EG AW+D Q+P E YW P+LFT+ + E
Sbjct: 176 ASLKWETERARQVLEHLLKEGLAWLDLQAPGEAHYWLPALFTDLYSQE 223
>3cuq_B Vacuolar protein-sorting-associated protein 36; ESCRT, MBV, VPS,
nucleus, protein transport, transc transcription
regulation, transport, endosome; 2.61A {Homo sapiens}
PDB: 2zme_B
Length = 218
Score = 90.8 bits (225), Expect = 2e-22
Identities = 39/220 (17%), Positives = 87/220 (39%), Gaps = 19/220 (8%)
Query: 30 NQLEQLSQHLNTFRDKLESFASEYKNEIKKDAQFRRHFQEMCASIGVDPLASRKGFWSLL 89
++L ++ + + + + + +I +D R F+ S+G+ +R+ + S
Sbjct: 14 SKLMIKAKEMVELSKSIANKIKDKQGDITEDETIR--FKSYLLSMGIANPVTRETYGS-- 69
Query: 90 GMGDFYY-ELSVQIVEVCLATNYKNGGLILLDELRTRLVKSRGKSLQHQDITNEDLLAAA 148
G Y+ +L+ Q+ + + GG++ L E+ + ++RG L ++ EDL+ A
Sbjct: 70 --GTQYHMQLAKQLAGILQVPLEERGGIMSLTEVYCLVNRARGMEL----LSPEDLVNAC 123
Query: 149 KKLKIFGNGFSIIPIGQGQYLVQSIPGELSLDHSLVLQQVASKNEAHISVSV--LNNELN 206
K L+ + G +++ S ++ S++ +
Sbjct: 124 KMLEALKLPLRLRVFDSGVMVIELQ----SHKEEEMVASALETVSEKGSLTSEEFAKLVG 179
Query: 207 WSTERAQHALDFMVQEGYAWIDTQSPQEHLYWFPSLFTEC 246
S A+ L + G+ D E L ++P+LF
Sbjct: 180 MSVLLAKERLLLAEKMGHLCRDDSV--EGLRFYPNLFMTQ 217
>1w7p_D VPS36P, YLR417W; ESCRT-II complex, endosomal protein sorting,
protein transpo; 3.60A {Saccharomyces cerevisiae} SCOP:
a.4.5.54 a.4.5.54
Length = 566
Score = 75.5 bits (184), Expect = 8e-16
Identities = 40/256 (15%), Positives = 89/256 (34%), Gaps = 22/256 (8%)
Query: 2 RRRAGVGAIQKQKLEQEKYKDKGTSIQENQLEQLSQHLNTFRDKLESFASEYKNEIKKDA 61
R G+ +++K + Q D + L +L + +E +K
Sbjct: 320 LSRIGISSLEKSRENQLLNNDILFNNALTDLNKLM----SLATSIERLYKNSNITMKTKT 375
Query: 62 QFRRHFQEMCASIGVDPLAS--RKGFWSLLGMGDFYYELSVQIVEVCLA-----TNYKNG 114
+ + PL R+ F + F E++ +I E L+ + N
Sbjct: 376 LNLQDESTVNEPKTRRPLLILDREKFLN---KELFLDEIAREIYEFTLSEFKDLNSDTNY 432
Query: 115 GLILLDELRTRLVKSRGKSLQHQDITNEDLLAAAKKLKIFGNG-FSIIPIGQGQYLVQSI 173
+I L +L KS I+ ++ A ++ + G ++ + + V S
Sbjct: 433 MIITLVDLYAMYNKSMRIGTGL--ISPMEMREACERFEHLGLNELKLVKVNKRILCVTSE 490
Query: 174 PGELSLDHSL-VLQQVASKNEAHISVSV--LNNELNWSTERAQHALDFMVQEGYAWIDTQ 230
++ + + ++ + ++ + N++ NW+ L V EG ID Q
Sbjct: 491 KFDVVKEKLVDLIGDNPGSDLLRLTQILSSNNSKSNWTLGILMEVLQNCVDEGDLLIDKQ 550
Query: 231 SPQEHLYWFPSLFTEC 246
+Y++ + +
Sbjct: 551 L--SGIYYYKNSYWPS 564
>1u5t_B Defective in vacuolar protein sorting; VPS36P; ESCRT, endosomal,
trafficking, protein complex, transport protein; 3.60A
{Saccharomyces cerevisiae} SCOP: a.4.5.54 a.4.5.54
Length = 169
Score = 53.4 bits (128), Expect = 4e-09
Identities = 27/160 (16%), Positives = 62/160 (38%), Gaps = 13/160 (8%)
Query: 94 FYYELSVQIVEVCLA-----TNYKNGGLILLDELRTRLVKSRGKSLQHQDITNEDLLAAA 148
F E++ +I E L+ + N +I L +L KS I+ ++ A
Sbjct: 12 FLDEIAREIYEFTLSEFKDLNSDTNYMIITLVDLYAMYNKSMRIGTGL--ISPMEMREAC 69
Query: 149 KKLKIFGNG-FSIIPIGQGQYLVQSIPGELSLDHSL-VLQQVASKNEAHISVSV--LNNE 204
++ + G ++ + + V S ++ + + ++ + ++ + N++
Sbjct: 70 ERFEHLGLNELKLVKVNKRILCVTSEKFDVVKEKLVDLIGDNPGSDLLRLTQILSSNNSK 129
Query: 205 LNWSTERAQHALDFMVQEGYAWIDTQSPQEHLYWFPSLFT 244
NW+ L V EG ID Q +Y++ + +
Sbjct: 130 SNWTLGILMEVLQNCVDEGDLLIDKQL--SGIYYYKNSYW 167
>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 = 49.3 bits (117), Expect = 5e-07
Identities = 41/231 (17%), Positives = 71/231 (30%), Gaps = 74/231 (32%)
Query: 24 GTSIQENQLEQLSQHL-NTFRDKLESF----ASEYKNEIKKDAQFRRHFQEMCASIGVDP 78
G + ++ E+L + L T+ + A I+ + F + G++
Sbjct: 164 GNT--DDYFEEL-RDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQ-----GLNI 215
Query: 79 LASRKGFWSLLGMG---DFYY----ELSVQIVEVCLATNY----KNGGLILLDELRTRLV 127
L W L D Y +S ++ V +Y K G ELR+ L
Sbjct: 216 LE-----W-LENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGF-TPGELRSYL- 267
Query: 128 KSRGKSLQHQDI----------TNEDLLAAAKK-LKI-FGNGFSIIPIGQGQYLVQSIP- 174
+G + Q + + E + +K + + F G Y S+P
Sbjct: 268 --KGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVR----CYEAYPNTSLPP 321
Query: 175 ---------GE------LS---LDHSLVLQQVASKN-----EAHISVSVLN 202
E LS L V V N + +S++N
Sbjct: 322 SILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVN 372
Score = 40.8 bits (95), Expect = 3e-04
Identities = 47/268 (17%), Positives = 78/268 (29%), Gaps = 108/268 (40%)
Query: 8 GAIQKQKLEQ-------EKYKDKGTSIQENQLEQLSQHLN--TFR---DKLES------- 48
G + +++ + E D G E +++++H TFR L +
Sbjct: 1677 GGEKGKRIRENYSAMIFETIVD-GKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPA 1735
Query: 49 -FASEYKNEIKKDAQFRRHFQEMCASIGVDP----LA--SRKGFWSLLGMGDFYYE---L 98
E A F + G+ P A S LG E L
Sbjct: 1736 LTLMEK-------AAFE-DLKSK----GLIPADATFAGHS-------LG------EYAAL 1770
Query: 99 SVQIVEVCLATNYKNGGLILLDELRTRLVKSRGKSLQHQ--------------------- 137
LA ++ ++ L +V RG ++Q
Sbjct: 1771 ------ASLA------DVMSIESL-VEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRV 1817
Query: 138 --DITNEDLLAAAKKLKIFGNGF-SI----IPIGQGQYLVQSIPGELS-LDH-SLVLQQV 188
+ E L +++ I + Q QY V G+L LD + VL +
Sbjct: 1818 AASFSQEALQYVVERVGKRTGWLVEIVNYNVE-NQ-QY-V--AAGDLRALDTVTNVLNFI 1872
Query: 189 ASKNEAHISVSVLNNELNWSTERAQHAL 216
+ I + L L S E + L
Sbjct: 1873 KLQK---IDIIELQKSL--SLEEVEGHL 1895
Score = 37.3 bits (86), Expect = 0.004
Identities = 18/93 (19%), Positives = 33/93 (35%), Gaps = 30/93 (32%)
Query: 132 KSLQHQDITNEDLLAAAKKLKIFGNGFSIIPI---GQGQYLVQSIPGELSLDHSLVLQQV 188
L ++D+ ++ AK ++ IP+ G L + + G S+ +V +
Sbjct: 436 SDLINKDLVKNNVSFNAKDIQ--------IPVYDTFDGSDL-RVLSG--SISERIV-DCI 483
Query: 189 ASKNEAHISVSVLNNELNWSTE---RAQHALDF 218
+ W T +A H LDF
Sbjct: 484 IRLP------------VKWETTTQFKATHILDF 504
Score = 33.1 bits (75), Expect = 0.11
Identities = 26/138 (18%), Positives = 47/138 (34%), Gaps = 42/138 (30%)
Query: 90 GMG-DFYYELSVQIVEVCLATNYKNGGLILLDELRTRLVKSRGKSLQHQDITNEDLLAAA 148
GMG D Y+ S +V + + G S+ DI +
Sbjct: 1630 GMGMDL-YKTSKAAQDV-------------WNRADNHFKDTYGFSI--LDIVINN----P 1669
Query: 149 KKLKI-FGNGFSIIPIGQ-GQYLVQ---SIPGELSLDHSLVLQQVASKNEAHISVSVL-- 201
L I FG G+ G+ + + ++ E +D L +++ E + +
Sbjct: 1670 VNLTIHFG--------GEKGKRIRENYSAMIFETIVDGKLKTEKIF--KEINEHSTSYTF 1719
Query: 202 ---NNELNWSTERAQHAL 216
L+ +T+ Q AL
Sbjct: 1720 RSEKGLLS-ATQFTQPAL 1736
>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 = 44.8 bits (105), Expect = 1e-05
Identities = 36/310 (11%), Positives = 83/310 (26%), Gaps = 100/310 (32%)
Query: 15 LEQEKYKDKGTSIQENQLEQLSQHLNTFRDKLESFASEYKNEIKKDAQFRRHFQE----- 69
+ K + + S+ Q + D + FA + ++ + R+ E
Sbjct: 95 MSPIKTEQRQPSMMTRMYI--EQRDRLYNDN-QVFAKYNVSRLQPYLKLRQALLELRPAK 151
Query: 70 ------M------------CASIGVDPLASRKGFWSLLG-----------MGDFYYELSV 100
+ C S V K FW L + Y++
Sbjct: 152 NVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDP 211
Query: 101 QIVEVC---------------------LATNYKNGGLILLDELRTR------------LV 127
+ Y+N L++L ++ L+
Sbjct: 212 NWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYEN-CLLVLLNVQNAKAWNAFNLSCKILL 270
Query: 128 KSRGKSL-------QHQDITNEDL---LAAAKKLKIFGNGFSIIPIGQGQYLVQSIPGEL 177
+R K + I+ + L + + P Q +P E+
Sbjct: 271 TTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRP--------QDLPREV 322
Query: 178 SLDHSLVLQQVASKNEAHISVSVLNNELNWSTERAQHALDFMVQEGYAWIDTQSPQE--H 235
+ L +A + + +N + + ++ ++ + ++ P E
Sbjct: 323 LTTNPRRLSIIAESIRDGL--ATWDNWKHVNCDKLTTIIE-------SSLNVLEPAEYRK 373
Query: 236 LYWFPSLFTE 245
++ S+F
Sbjct: 374 MFDRLSVFPP 383
Score = 42.5 bits (99), Expect = 9e-05
Identities = 37/227 (16%), Positives = 82/227 (36%), Gaps = 61/227 (26%)
Query: 34 QLSQHLNTFRDKLESFASEYKNEIKKDAQFRRHFQEMCASI----GVDPL--------AS 81
+ +H ++D L F ++ + + Q+M SI +D + +
Sbjct: 10 ETGEHQYQYKDILSVF----EDAFVDNFDC-KDVQDMPKSILSKEEIDHIIMSKDAVSGT 64
Query: 82 RKGFWSLLGMGDFYYELSVQIVEVCLATNYKNGGLILLDELRTRLVKSRGKSLQHQD-IT 140
+ FW+LL + + + VE L NYK L+ ++T R S+ + I
Sbjct: 65 LRLFWTLLSKQEEMVQ---KFVEEVLRINYK----FLMSPIKTE---QRQPSMMTRMYIE 114
Query: 141 NEDLLAAAKKLKIFGNGFSIIPIGQGQYLVQSIPGELSLDHSLVLQQVASKNEAHISV-- 198
D +++ + Y V + L L + L ++ + ++ +
Sbjct: 115 QRD--------RLYNDNQVFAK-----YNVSRLQPYLKLRQA--LLEL--RPAKNVLIDG 157
Query: 199 ------SVLNNELNWSTERAQHALDFMVQEGYAWID---TQSPQEHL 236
+ + ++ + + Q +DF + W++ SP+ L
Sbjct: 158 VLGSGKTWVALDV-CLSYKVQCKMDFKI----FWLNLKNCNSPETVL 199
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 32.8 bits (74), Expect = 0.064
Identities = 12/72 (16%), Positives = 25/72 (34%), Gaps = 17/72 (23%)
Query: 9 AIQKQKLEQEK---YKDKGTSIQENQLEQLSQHLNTFRDKLESFASEYKNEIKK------ 59
+I+K + EQ K D + + E + + + LE + +++K
Sbjct: 86 SIRKWREEQRKRLQELDAASKVMEQEWRE------KAKKDLEEWNQRQSEQVEKNKINNR 139
Query: 60 --DAQFRRHFQE 69
D F +
Sbjct: 140 IADKAFYQQPDA 151
Score = 29.0 bits (64), Expect = 1.3
Identities = 9/57 (15%), Positives = 24/57 (42%), Gaps = 1/57 (1%)
Query: 1 MRRRAGVGAIQKQKLEQEKYKDKGTSIQENQLEQLSQHLNTFRDKLESFASEYKNEI 57
++ + +Q+ ++ KD + Q EQ+ ++ R ++F + +I
Sbjct: 98 LQELDAASKVMEQEWREKAKKDL-EEWNQRQSEQVEKNKINNRIADKAFYQQPDADI 153
>2cuk_A Glycerate dehydrogenase/glyoxylate reductase; structural genomics,
riken structur genomics/proteomics initiative, RSGI,
NPPSFA; HET: NHE; 2.00A {Thermus thermophilus}
Length = 311
Score = 27.5 bits (62), Expect = 3.9
Identities = 13/58 (22%), Positives = 23/58 (39%), Gaps = 3/58 (5%)
Query: 104 EVCLATNYKNGGLILLDELRTRLVKSRGKSLQHQDITNEDLLAAAKKLKI---FGNGF 158
E L G + EL R+ + G +D + +++ AK LK+ + G
Sbjct: 19 ERGLEVEVHRGLFLPKAELLKRVEGAVGLIPTVEDRIDAEVMDRAKGLKVIACYSVGV 76
>2heu_A Sugar ABC transporter, sugar-binding protein; periplasmic binding
protein, transport protein; 1.04A {Streptococcus
pneumoniae} PDB: 2hq0_A 2i58_A* 2hfb_A
Length = 401
Score = 27.4 bits (61), Expect = 5.1
Identities = 9/89 (10%), Positives = 18/89 (20%), Gaps = 9/89 (10%)
Query: 140 TNEDLLAAAKKLKIFGNGFSIIPIGQGQYLVQSIPGELSLDHSLVLQQVASKNEAHISVS 199
T ++ K + G P G + + K
Sbjct: 148 TWDEFEQLVKDIV--AKG--QTPFGIA--GADAWTLNGYNQLAFATATGGGKEANQYLRY 201
Query: 200 VLNNELNWSTERAQHALDF---MVQEGYA 225
N + S + + + G
Sbjct: 202 SQPNAIKLSDPIMKDDIKVMDILRINGSK 230
>3tqs_A Ribosomal RNA small subunit methyltransferase A; protein synthesis;
1.98A {Coxiella burnetii}
Length = 255
Score = 27.1 bits (61), Expect = 5.6
Identities = 8/41 (19%), Positives = 18/41 (43%), Gaps = 2/41 (4%)
Query: 118 LLDELRTRLVKSRGKSLQHQDITNEDL--LAAAKKLKIFGN 156
L+ L+ + + + ++ D D + K L++ GN
Sbjct: 63 LVAFLQKKYNQQKNITIYQNDALQFDFSSVKTDKPLRVVGN 103
>1z6r_A MLC protein; transcriptional repressor, ROK family protein, DNA
binding P helix-turn-helix, phosphotransferase system;
2.70A {Escherichia coli} SCOP: a.4.5.63 c.55.1.10
c.55.1.10 PDB: 3bp8_A
Length = 406
Score = 27.3 bits (61), Expect = 5.6
Identities = 10/33 (30%), Positives = 17/33 (51%)
Query: 118 LLDELRTRLVKSRGKSLQHQDITNEDLLAAAKK 150
+L+ + RL +S L Q +T + L AA +
Sbjct: 274 ILELAQLRLNQSMSSMLHGQPLTVDSLCQAALR 306
>2qb0_B Telsam domain - lysozyme chimera; helical polymer, hydrolase
regulator; 2.56A {Escherichia coli}
Length = 241
Score = 26.9 bits (58), Expect = 7.3
Identities = 12/84 (14%), Positives = 28/84 (33%), Gaps = 1/84 (1%)
Query: 12 KQKLEQEKYKDKGTSIQENQLEQ-LSQHLNTFRDKLESFASEYKNEIKKDAQFRRHFQEM 70
K +L++ ++ I +++ E+ Q ++ + A D R M
Sbjct: 122 KSELDKAIGRNTNGVITKDEAEKLFCQDVDAAVRGILRNAKLKPVYDSLDCVRRAALINM 181
Query: 71 CASIGVDPLASRKGFWSLLGMGDF 94
+G +A +L +
Sbjct: 182 VFQMGETGVAGFTNSLRMLQQKRW 205
>3ftd_A Dimethyladenosine transferase; KSGA, rossmann-like fold, RNA
methyltransferase, mtase, anti resistance,
methyltransferase, RNA-binding; 1.44A {Aquifex aeolicus}
PDB: 3ftc_A 3fte_A 3ftf_A* 3r9x_B*
Length = 249
Score = 26.3 bits (59), Expect = 8.5
Identities = 6/21 (28%), Positives = 12/21 (57%)
Query: 136 HQDITNEDLLAAAKKLKIFGN 156
++D + + K+LK+ GN
Sbjct: 82 NEDASKFPFCSLGKELKVVGN 102
>2d0i_A Dehydrogenase; structural genomics, NPPSFA, national project
protein structural and functional analyses; 1.95A
{Pyrococcus horikoshii}
Length = 333
Score = 26.4 bits (59), Expect = 9.2
Identities = 4/16 (25%), Positives = 9/16 (56%)
Query: 141 NEDLLAAAKKLKIFGN 156
++L A++LK+
Sbjct: 55 TREVLENAERLKVISC 70
>2cxa_A Leucyl/phenylalanyl-tRNA-protein transferase; aminoacyl-tRNA,
protein degradation, structural genomics, NPPSFA; HET:
MSE; 1.60A {Escherichia coli} SCOP: d.108.1.6 PDB:
2dps_A 2dpt_A* 2z3o_A* 2z3k_A* 2z3l_A* 2z3m_A* 2z3n_A*
2z3p_A*
Length = 256
Score = 26.1 bits (57), Expect = 9.9
Identities = 8/44 (18%), Positives = 13/44 (29%)
Query: 196 ISVSVLNNELNWSTERAQHALDFMVQEGYAWIDTQSPQEHLYWF 239
S+ + N S + + G ID Q +H
Sbjct: 171 CGESMFSRMENASKTALLVFCEEFIGHGGKLIDCQVLNDHTASL 214
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 0.383
Gapped
Lambda K H
0.267 0.0499 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,681,136
Number of extensions: 205302
Number of successful extensions: 616
Number of sequences better than 10.0: 1
Number of HSP's gapped: 600
Number of HSP's successfully gapped: 47
Length of query: 254
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 163
Effective length of database: 4,160,982
Effective search space: 678240066
Effective search space used: 678240066
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: 56 (25.9 bits)