RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9095
(203 letters)
>1dt9_A ERF1, protein (eukaryotic peptide chain release factor subunit 1);
tRNA mimicry, protein sythesis, STOP codon recognition,
peptidyl-tRNA hydrolysis; 2.70A {Homo sapiens} SCOP:
c.55.4.2 d.79.3.2 d.91.1.1 PDB: 3e1y_A* 2ktu_A 2ktv_A
2lgt_A 2hst_A
Length = 437
Score = 188 bits (478), Expect = 2e-58
Identities = 169/191 (88%), Positives = 182/191 (95%)
Query: 10 VPPNGLVIYCGTIVTEEGKEKKVNIDFEPFKPINTSLYLCDNKFHTEALTALLADDNKFG 69
VPPNGLV+YCGTIVTEEGKEKKVNIDFEPFKPINTSLYLCDNKFHTEALTALL+DD+KFG
Sbjct: 88 VPPNGLVVYCGTIVTEEGKEKKVNIDFEPFKPINTSLYLCDNKFHTEALTALLSDDSKFG 147
Query: 70 FIVMDGNGALFGTLQGNTREVLHKFTVDLPKKHGRGGQSALRFARLRMEKRHNYVRKVAE 129
FIV+DG+GALFGTLQGNTREVLHKFTVDLPKKHGRGGQSALRFARLRMEKRHNYVRKVAE
Sbjct: 148 FIVIDGSGALFGTLQGNTREVLHKFTVDLPKKHGRGGQSALRFARLRMEKRHNYVRKVAE 207
Query: 130 VATTLFITNDKPNIAGLILAGSADFKTELSQSDMFDPRLQAKIIKLVDVSYGGENGFNQA 189
A LFI+ DK N+AGL+LAGSADFKTELSQSDMFD RLQ+K++KLVD+SYGGENGFNQA
Sbjct: 208 TAVQLFISGDKVNVAGLVLAGSADFKTELSQSDMFDQRLQSKVLKLVDISYGGENGFNQA 267
Query: 190 IELAAESLQNV 200
IEL+ E L NV
Sbjct: 268 IELSTEVLSNV 278
>3e20_C Eukaryotic peptide chain release factor subunit 1; SUP35, SUP45,
translation termination, peptide release, GTP-
nucleotide-binding; 3.50A {Schizosaccharomyces pombe}
Length = 441
Score = 189 bits (479), Expect = 2e-58
Identities = 144/194 (74%), Positives = 164/194 (84%)
Query: 10 VPPNGLVIYCGTIVTEEGKEKKVNIDFEPFKPINTSLYLCDNKFHTEALTALLADDNKFG 69
VP NGLVIYCG ++ E K +K+NIDFEPFKPINTS YLCDNKFHTEAL LL D +FG
Sbjct: 93 VPDNGLVIYCGEVIMEGNKTRKLNIDFEPFKPINTSQYLCDNKFHTEALAELLESDQRFG 152
Query: 70 FIVMDGNGALFGTLQGNTREVLHKFTVDLPKKHGRGGQSALRFARLRMEKRHNYVRKVAE 129
FIVMDG+ L+G + G+ REVL +FTVDLPKKHGRGGQSALRFARLR EKRHNYVRKVAE
Sbjct: 153 FIVMDGHQTLYGVVSGSAREVLQRFTVDLPKKHGRGGQSALRFARLRDEKRHNYVRKVAE 212
Query: 130 VATTLFITNDKPNIAGLILAGSADFKTELSQSDMFDPRLQAKIIKLVDVSYGGENGFNQA 189
A FIT+DKPN+AG++LAGSADFKTEL QSD+FD RLQ++IIK VDVSYGG+ GFNQA
Sbjct: 213 GAVQHFITDDKPNVAGIVLAGSADFKTELGQSDLFDQRLQSRIIKTVDVSYGGDAGFNQA 272
Query: 190 IELAAESLQNVLIV 203
IELAA++L NV V
Sbjct: 273 IELAADTLSNVKYV 286
>3agk_A Peptide chain release factor subunit 1; translation; 2.10A
{Aeropyrum pernix}
Length = 373
Score = 145 bits (366), Expect = 2e-42
Identities = 62/193 (32%), Positives = 100/193 (51%), Gaps = 5/193 (2%)
Query: 10 VPPNGLVIYCGTIVTEEGKEKKVNIDFEPFKPINTSLYLCDNKFHTEALTALLADDNKFG 69
PPNGLV++CG + K F P +PI Y D +F T+ L ++ D+N G
Sbjct: 88 TPPNGLVLFCGEDM---STGKFECFMFSPPEPIRVFYYRTDKRFITDFLEDMVEDNNAIG 144
Query: 70 FIVMDGNGALFGTLQGNTREVLHKFTVDLPKKHGRGGQSALRFARLRMEKRHNYVRKVAE 129
I+++ + A G L+G EVL + +P KH GGQS R+ R+ + + +KV E
Sbjct: 145 IIIVERDQATIGLLKGARLEVLKELEGFVPGKHKMGGQSQRRYERIIEQMVDEFFKKVGE 204
Query: 130 VATTLFITN-DKPNIAGLILAGSADFKTELSQSDMFDPRLQAKII-KLVDVSYGGENGFN 187
A+ L + +K + G+I+AG K E + + D RL+ + +LVDV+Y G G
Sbjct: 205 EASNLLVPLAEKGVLKGVIVAGPGLAKQEFVEGNYLDYRLKKILAPELVDVAYQGLQGLK 264
Query: 188 QAIELAAESLQNV 200
+A+ A + ++
Sbjct: 265 EAVMKAEKVVEAQ 277
>3j15_A Protein pelota; ribosome recycling, ribosome, archaea,
translation-transport complex; HET: ADP; 6.60A
{Pyrococcus furiosus}
Length = 357
Score = 125 bits (314), Expect = 7e-35
Identities = 33/189 (17%), Positives = 61/189 (32%), Gaps = 17/189 (8%)
Query: 10 VPPNGLVIYCGTIVTEEGKEKKVNIDFEPFKPINTSLYLCDNKFHTEALTALLADDNK-- 67
V G ++Y GK + I+ I + H E L +A +
Sbjct: 79 VRVTGPIVYASREDVPLGKYHTIAIEQGTVVTIQ---KPRWKEHHIERLKEAVAASKRAR 135
Query: 68 FGFIVMDGNGALFGTLQGNTREVLHKFTVDLPKKHGRGGQSALRFARLRMEKRHNYVRKV 127
+V+D A ++ E+L+ +L K + R + + V
Sbjct: 136 VMIVVIDDGEADMALVREYGVEILNSIRHNLGGKR---------YNTDRESEEMKFFHDV 186
Query: 128 AEVATTLFITNDKPNIAGLILAGSADFKTELSQSDMFDPRLQAKIIKLVDVSYGGENGFN 187
A+ + + N+ I+AG K + + AK + + D S G G
Sbjct: 187 AKTMEEVM---KRENVEKAIVAGPGFVKEDFYKFLKEKYPELAKKVVIEDTSVTGRTGIY 243
Query: 188 QAIELAAES 196
+ I+
Sbjct: 244 EVIKRGVVD 252
>2vgn_A DOM34; translation termination factor, protein biosynthesis,
translation regulation, cell division, mRNA degradation;
2.5A {Saccharomyces cerevisiae} SCOP: b.38.4.1 c.55.4.2
d.79.3.2 PDB: 2vgm_A 3izq_0 3j16_A*
Length = 386
Score = 114 bits (287), Expect = 1e-30
Identities = 32/213 (15%), Positives = 64/213 (30%), Gaps = 30/213 (14%)
Query: 11 PPNGLVIYCGTIVTEEGKEKKVNI--------DFEPFKPINTSLYLCDNKFHTEALTALL 62
+ + Y G VT+E V+I + P T + NKF + L
Sbjct: 76 MKDEYLKYKGVTVTDESGASNVDIPVGKYLSFTLDYVYPF-TIIKQNFNKFMQKLLNEAC 134
Query: 63 --ADDNKFGFIVMDGNGALFGTLQGNTREVLHKFTVDLPKKHGRGGQSALRFARLRMEKR 120
+ +V+ A + ++ + K +PKK EK
Sbjct: 135 NIEYKSDTAAVVLQEGIAHVCLVTSSSTILKQKIEYSMPKKKRTTDVLKFD------EKT 188
Query: 121 HNYVRKVAEVATTLFITNDKPNIAGLILAGSADFKTELSQ------SDMFDPRLQA--KI 172
+ + + + + +IL + L + + ++ +
Sbjct: 189 EKFYKAIYSAMKKDL---NFDKLKTIILCSPGFYAKILMDKIFQYAEEEHNKKILDNKGM 245
Query: 173 IKLVDVSYGGENGFNQAIE--LAAESLQNVLIV 203
+ S G G N+ ++ L A LQ+
Sbjct: 246 FFIAHCSTGYLQGINEVLKNPLYASKLQDTKYS 278
>3mca_B Protein DOM34, elongation factor 1 alpha-like protein; protein
protein complex, translation regulation; 2.74A
{Schizosaccharomyces pombe}
Length = 390
Score = 114 bits (286), Expect = 1e-30
Identities = 25/209 (11%), Positives = 52/209 (24%), Gaps = 27/209 (12%)
Query: 11 PPNGLVIYCGTIVTEEGK----EKKVNIDFEPFKPINTSLYLCDNKFHTEALTALLADDN 66
++ TE +D E + D F + + A
Sbjct: 75 DTKAAQLHIKGRTTEYHPEVKMGSYHTLDLELHRNFTLYKNEWD-AFALDRVDAACNPSR 133
Query: 67 K--FGFIVMDGNGALFGTLQGNTREVLHKFTVDLPKKHGRGGQSALRFARLRMEKRHNYV 124
G +V+D A + + + +P+K + + +
Sbjct: 134 NAEIGAVVLDEGLANICLITDYMTILRQRIDQVIPRKRRGDSSA-------YQKGLDKFY 186
Query: 125 RKVAEVATTLFITNDKPNIAGLILAGSADFKTELSQSDMFDPRLQ--------AKIIKLV 176
V + + F D + +ILA L ++
Sbjct: 187 DSVFQSINSEF---DFDKLKVVILASPGFVARGLYDYIFSMAVKLDLKQIVKSKNKFVIL 243
Query: 177 DVSYGGENGFNQAIE--LAAESLQNVLIV 203
S G + N+ ++ L + V
Sbjct: 244 HSSTGHIHSLNEILKDPAVESKLADTKYV 272
>3oby_A Protein pelota homolog; SM fold, hydrolase; 2.90A {Archaeoglobus
fulgidus}
Length = 352
Score = 110 bits (277), Expect = 2e-29
Identities = 32/197 (16%), Positives = 62/197 (31%), Gaps = 27/197 (13%)
Query: 11 PPNGLVIYCGTIVTEEGKEKKVNIDFEPFKPINTSLYLCDNKFHTEALTALLADDNK--F 68
+ G IV + ++ K ++ E L + D N+
Sbjct: 74 RFANRLRVSGKIVAGIEESGYHTLNITVGKELSI--IKKWKPEQLERLRRAVEDSNRPEI 131
Query: 69 GFIVMDGNGALFGTLQGNTREVLHKFTVDLPKKHGRGGQSALRFARLRMEKRHNYVRKVA 128
+ ++ A+ G L+ E + + + K G R + +VA
Sbjct: 132 VMLTIEEGYAVAGVLRQWGVEEIFEERMGYGKGMGDS--------------RKEFFGEVA 177
Query: 129 EVATTLFITNDKPNIAGLILAGSADFKTELSQSDMFDPRLQAKIIKLVDVSYGGENGFNQ 188
+ + LI+AG K + AK +VDVS G GF +
Sbjct: 178 AKL-------ESFDFKYLIVAGPGFAKNDFLDFLKERYPEMAKNAVVVDVSSVGSRGFIE 230
Query: 189 AIE--LAAESLQNVLIV 203
++ + + + V +
Sbjct: 231 ILKRRVVDKIVGEVRLA 247
>3agj_B Protein pelota homolog; GTP binding, translation-hydrolase complex;
HET: GTP; 2.30A {Aeropyrum pernix}
Length = 358
Score = 105 bits (264), Expect = 2e-27
Identities = 28/185 (15%), Positives = 56/185 (30%), Gaps = 20/185 (10%)
Query: 11 PPNGLVIYCGTIVTEEGKEKKV----NIDFEPFKPINTSLYLCDNKFHTEALTALLADDN 66
P G + G +V + + + ++ E L A
Sbjct: 71 PFTGKLRISGIVVEGPDEFGVKGRRHSTAVSIGTWLVVERDKGWSEQELERLAAG-RARG 129
Query: 67 KFGFIVMDGNGALFGTLQGNTREVLHKFTVDLPKKHGRGGQSALRFARLRMEKRHNYVRK 126
+D + L G+ ++L + LP K + + YV +
Sbjct: 130 TAVIAAVDYDEFALAVLAGHGMKILEDTSARLPGKDDPSREQEVE----------KYVDR 179
Query: 127 VAEVATTLFITNDKPNIAGLILAGSADFKTELSQSDMFDPRLQAKIIKLVDVSYGGENGF 186
A+ + ++AG KT + ++ + + + VD S GG G
Sbjct: 180 AAKRIVEEA---ARHRSPIAVIAGPGQLKTSV--AEKVQRAMPSLKVATVDTSMGGVAGV 234
Query: 187 NQAIE 191
+A+
Sbjct: 235 REALR 239
>3obw_A Protein pelota homolog; SM fold, hydrolase; 2.60A {Sulfolobus
solfataricus}
Length = 364
Score = 105 bits (264), Expect = 2e-27
Identities = 26/193 (13%), Positives = 67/193 (34%), Gaps = 24/193 (12%)
Query: 13 NGLVIYCGTIVTEEGKEKKVNIDFEPFKPINTSLYLCDNKFHTEALTALLADDNKFGFIV 72
+G++ +G +N+ + I + NK+ + L ++ +
Sbjct: 96 HGIIEDAPERFGIKGAHHTINL--DIGDEI-IIIKQQWNKYVLDRLKRQANKRSRIIIAL 152
Query: 73 MDGNGALFGTLQGNTREVLHKFTVDLPKKHGRGGQSALRFARLRMEKRHNYVRKVAEVAT 132
+D + L ++L + ++ + + + ++AE
Sbjct: 153 VDFDEYLIAIPFEQGIKILSEKSLRPLNEEEGIIE----------QNALEIATELAEYV- 201
Query: 133 TLFITNDKPNIAGLILAGSADFKTELSQSDMFDPRLQAKIIKLVDVSYGGENGFNQAIE- 191
+ + ++LAG FK E+ S + L+ K I + VS G ++ ++
Sbjct: 202 ------KQYDPDAILLAGPGFFKEEV--SKKVNAILKNKKIYIDSVSSATRAGLHEVLKR 253
Query: 192 -LAAESLQNVLIV 203
+ + + + I
Sbjct: 254 DIIDKIMTDYEIA 266
>2qi2_A Pelota, cell division protein pelota related protein; DOM34, cell
cycle; 2.90A {Thermoplasma acidophilum} SCOP: b.38.4.1
c.55.4.2 d.79.3.2
Length = 347
Score = 98.3 bits (244), Expect = 8e-25
Identities = 19/188 (10%), Positives = 48/188 (25%), Gaps = 24/188 (12%)
Query: 11 PPNGLVIYCGTIVTEEGKEKKVNIDFEPFKPINTSLYLCDNKFHTEALTALLADDNK--F 68
+ + GT++ K + S+ + H + L + +
Sbjct: 74 DFDNRLRILGTVIEGPEDTKGKHQSITVTVDSEISITKEWDDQHIDLLKEATDEKYVTVY 133
Query: 69 GFIVMDGNGALFGTLQGNTREVLHKFTVDLPKKHGRGGQSALRFARLRMEKRHNYVRKVA 128
+ MD + A + + + K+ G S + + NY +
Sbjct: 134 TAVAMDEDEAQIFLIHPYGIQQVGTVYSGRSGKYAEGNYSEASYFDQIVNALKNYSNSI- 192
Query: 129 EVATTLFITNDKPNIAGLILAGSADFKTELSQSDMFDPRLQAKIIKLVDVSYGGENGFNQ 188
I+ G + ++ + + +I + +
Sbjct: 193 ------------------IILGPGFARDRFAR---YCAQRGVNVIGSFPANRTDSGAVYE 231
Query: 189 AIELAAES 196
I A +
Sbjct: 232 FITSADGA 239
>3ir9_A Peptide chain release factor subunit 1; structural genomics,
APC36528.1, C-terminal domain, PSI-2, protein structure
initiative; 2.21A {Methanosarcina mazei}
Length = 166
Score = 38.1 bits (88), Expect = 5e-04
Identities = 7/26 (26%), Positives = 16/26 (61%)
Query: 178 VSYGGENGFNQAIELAAESLQNVLIV 203
+Y E+G ++ + A E LQ++ ++
Sbjct: 2 NAYTDESGLSELVNAAGEKLQDLELM 27
>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 = 38.7 bits (89), Expect = 0.001
Identities = 45/261 (17%), Positives = 73/261 (27%), Gaps = 78/261 (29%)
Query: 1 MNSISGRYLVPPNGLVIYCGTIVTEEGKEKKVNIDFEPFKPINTSLYLCDNKFHTEALTA 60
M+ I P +Y E +++ N D + F N + + + + A
Sbjct: 95 MSPIKTEQRQPSMMTRMY------IEQRDRLYN-DNQVFAKYN----VSRLQPYLKLRQA 143
Query: 61 LLADDNKFGFIV--MDGNG----AL-------------FG----TLQGNTR------EVL 91
LL ++ + G+G AL F L N E+L
Sbjct: 144 LLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNL-KNCNSPETVLEML 202
Query: 92 HKFTVDL-PKKHGRGGQSA----------LRFARLRMEKRHNY-------VR--KVAEV- 130
K + P R S+ RL K + V+ K
Sbjct: 203 QKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAF 262
Query: 131 ---ATTLFITNDKPNIAGLILAGSADFKTELSQSDM---FDPR----LQAKI--IKLVDV 178
L T K L SA T +S P L K + D+
Sbjct: 263 NLSCKILLTTRFKQVTDFL----SAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDL 318
Query: 179 SYGGENGFNQAIELAAESLQN 199
+ + + AES+++
Sbjct: 319 PREVLTTNPRRLSIIAESIRD 339
Score = 29.4 bits (65), Expect = 0.90
Identities = 31/202 (15%), Positives = 66/202 (32%), Gaps = 51/202 (25%)
Query: 50 DNKFHTEALTALLADDNKFGFIVMDGNGA-----LFGTLQGNTREVLHKFTVDLPKK--- 101
D K + ++L+ + + I+M + LF TL E++ KF ++ +
Sbjct: 34 DCKDVQDMPKSILSKE-EIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYK 92
Query: 102 ------HGRGGQSALRF-----ARLRME------KRHNYVR--KVAEVATTLFITNDKPN 142
Q ++ R R+ ++N R ++ L N
Sbjct: 93 FLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKN 152
Query: 143 IA--GL------ILAGSA--DFKTELSQSD-MF--------DPRL----QAKIIKLVDVS 179
+ G+ +A +K + +F P K++ +D +
Sbjct: 153 VLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPN 212
Query: 180 YGGENGFNQAIELAAESLQNVL 201
+ + + I+L S+Q L
Sbjct: 213 WTSRSDHSSNIKLRIHSIQAEL 234
Score = 26.7 bits (58), Expect = 6.3
Identities = 18/95 (18%), Positives = 29/95 (30%), Gaps = 29/95 (30%)
Query: 16 VIYCGTIVTEEGKEKKVNIDFEPFKPINTSLYLCDNKFHTEALTALLADDNKFGFIVMDG 75
+ + T G + +KP Y+CDN E L + D F+
Sbjct: 507 IRHDSTAWNASGSILNTLQQLKFYKP-----YICDNDPKYERLVNAILD-----FL---- 552
Query: 76 NGALFGTLQGNTREVLHKFTVDLPKKHGRGGQSAL 110
+ + K+T DL + AL
Sbjct: 553 -------PKIEENLICSKYT-DLL-------RIAL 572
>1tiq_A Protease synthase and sporulation negative regulatory protein PAI
1; alpha-beta protein, structural genomics, PSI; HET:
COA; 1.90A {Bacillus subtilis} SCOP: d.108.1.1
Length = 180
Score = 30.1 bits (68), Expect = 0.34
Identities = 16/98 (16%), Positives = 36/98 (36%), Gaps = 17/98 (17%)
Query: 39 FKPINTSLYL---CDNKFHTEALTALLADDNKFGFIVMDGNGALFGTLQGNTREV----- 90
FK N+ + ++ F+TE L L++ + F + + + G ++ N +
Sbjct: 28 FKEQNSPENMKAYLESAFNTEQLEKELSNMSSQ-FFFIYFDHEIAGYVKVNIDDAQSEEM 86
Query: 91 ------LHKFTVDLPKKHGRG-GQSALRFARLRMEKRH 121
+ + + G G+ L A +R+
Sbjct: 87 GAESLEIERIYI-KNSFQKHGLGKHLLNKAIEIALERN 123
>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 = 30.4 bits (68), Expect = 0.43
Identities = 16/95 (16%), Positives = 22/95 (23%), Gaps = 52/95 (54%)
Query: 35 DFEPFKPINTSLYLCDNKFHTEALT----------------------------------- 59
+FE + YL N H A
Sbjct: 90 EFE-------NCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSN 142
Query: 60 -ALL--ADDNKFGFIVMDGNGALFGTLQGNTREVL 91
AL + + A+FG QGNT +
Sbjct: 143 SALFRAVGEGNAQLV------AIFGG-QGNTDDYF 170
>1xg5_A ARPG836; short chain dehydrogenase, human, SGC, structural
genomics, structural genomics consortium,
oxidoreductase; HET: NAP; 1.53A {Homo sapiens} SCOP:
c.2.1.2
Length = 279
Score = 29.9 bits (68), Expect = 0.46
Identities = 7/21 (33%), Positives = 12/21 (57%)
Query: 1 MNSISGRYLVPPNGLVIYCGT 21
+NS+SG ++P + Y T
Sbjct: 170 INSMSGHRVLPLSVTHFYSAT 190
>1u2p_A Ptpase, low molecular weight protein-tyrosine- phosphatase;
hydrolase; 1.90A {Mycobacterium tuberculosis} PDB:
1u2q_A
Length = 163
Score = 28.2 bits (64), Expect = 1.3
Identities = 13/63 (20%), Positives = 25/63 (39%), Gaps = 2/63 (3%)
Query: 139 DKPNIAGLILAGSADFKTELSQSDMFDPRLQAKIIKLVDVSYGGENGFNQAIELAAESLQ 198
D+ + L G + + +S FDPR + + D YG + F + + +L
Sbjct: 90 DRNHARLLRQLGVEAARVRMLRS--FDPRSGTHALDVEDPYYGDHSDFEEVFAVIESALP 147
Query: 199 NVL 201
+
Sbjct: 148 GLH 150
>3bf0_A Protease 4; bacterial, hydrolase, inner membrane, membrane,
transmembrane; 2.55A {Escherichia coli} PDB: 3bez_A
Length = 593
Score = 26.4 bits (58), Expect = 7.7
Identities = 12/27 (44%), Positives = 14/27 (51%), Gaps = 4/27 (14%)
Query: 169 QAKIIKLVDVSYGGENGFNQAIELAAE 195
AK LVD S G F+ A+ AAE
Sbjct: 491 DAKANGLVD-SLGD---FDDAVAKAAE 513
>2q8u_A Exonuclease, putative; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-2, hydrolase; HET: MSE; 2.20A {Thermotoga maritima
MSB8} PDB: 3thn_A
Length = 336
Score = 26.2 bits (58), Expect = 7.9
Identities = 9/43 (20%), Positives = 15/43 (34%), Gaps = 5/43 (11%)
Query: 6 GRYLVPPNGLVIYCGTI----VTEEGKEKKVNI-DFEPFKPIN 43
+ L IY G++ EE EK + + +P
Sbjct: 231 SFREIQKQPLTIYPGSLIRIDFGEEADEKGAVFVELKRGEPPR 273
>1e5k_A Molybdopterin-guanine dinucleotide biosynthesis protein A;
molybdopterin nucleotidyl-transferase,; HET: CIT; 1.35A
{Escherichia coli} SCOP: c.68.1.8 PDB: 1h4e_A* 1hjl_A*
1hjj_A* 1h4c_A* 1h4d_A* 1fr9_A 1frw_A*
Length = 201
Score = 25.7 bits (57), Expect = 9.7
Identities = 6/13 (46%), Positives = 8/13 (61%)
Query: 138 NDKPNIAGLILAG 150
N I G++LAG
Sbjct: 2 NLMTTITGVVLAG 14
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 0.138 0.394
Gapped
Lambda K H
0.267 0.0707 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,064,718
Number of extensions: 182873
Number of successful extensions: 379
Number of sequences better than 10.0: 1
Number of HSP's gapped: 364
Number of HSP's successfully gapped: 28
Length of query: 203
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 114
Effective length of database: 4,216,824
Effective search space: 480717936
Effective search space used: 480717936
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: 55 (25.0 bits)