RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10116
(298 letters)
>2nn6_H Exosome complex exonuclease RRP4; RNA, exosome, PM/SCL,
phosphorolytic, hydrolase/transferase complex; 3.35A
{Homo sapiens} SCOP: b.40.4.5 b.84.4.2 d.51.1.1
Length = 308
Score = 266 bits (680), Expect = 1e-88
Identities = 145/289 (50%), Positives = 207/289 (71%), Gaps = 4/289 (1%)
Query: 10 IEIMLASDRIDPLIEIHEFTDP-ILTPGETVEYLEGYMTGHGTFPDDEEIKASVGGVVEK 68
+E+ L R + T ++ PG+T+ G+M GHGT+ +E++ ASV G VE+
Sbjct: 18 MEMRLPVARKPLSERLGRDTKKHLVVPGDTITTDTGFMRGHGTYMGEEKLIASVAGSVER 77
Query: 69 VNQLVSVRAMNSRYIGEIGEVVVGRVTGLQSQKWVVDTNSILESALHLTSVNLPGGEQRR 128
VN+L+ V+A+ +RYIGE+G++VVGR+T +Q ++W V+TNS L+S L L+S+NLPGGE RR
Sbjct: 78 VNKLICVKALKTRYIGEVGDIVVGRITEVQQKRWKVETNSRLDSVLLLSSMNLPGGELRR 137
Query: 129 RSVQDEEMMREFLKEGDLISAEIHQISTEGSLTLHTRSLKYGKLGQGILLTVPPSLIRRS 188
RS +DE MR FL+EGDLISAE+ + ++G+++LHTRSLKYGKLGQG+L+ V PSL++R
Sbjct: 138 RSAEDELAMRGFLQEGDLISAEVQAVFSDGAVSLHTRSLKYGKLGQGVLVQVSPSLVKRQ 197
Query: 189 KSHFCNLACGAQVILGCNGYVWVSAIDENK---SGGFIQNMEVVKLSDRETITRLNNVIK 245
K+HF +L CGA VILG NG++W+ E+K +GGFI N+E V L+DRE I+RL N I
Sbjct: 198 KTHFHDLPCGASVILGNNGFIWIYPTPEHKEEEAGGFIANLEPVSLADREVISRLRNCII 257
Query: 246 ALAESKVMLFDTSIQYAYEESLKYSTYDLLKPESKLDLVLCTAQKLQTL 294
+L ++ML+DTSI Y YE SL + D+LKPE ++V+ T Q+L
Sbjct: 258 SLVTQRMMLYDTSILYCYEASLPHQIKDILKPEIMEEIVMETRQRLLEQ 306
>2ba0_A Archeal exosome RNA binding protein RRP4; RNAse PH, RNA
degradation, exoribonuclease, S1domain, KH domain,
archaeal; 2.70A {Archaeoglobus fulgidus} SCOP: b.40.4.5
b.84.4.2 d.51.1.1
Length = 229
Score = 155 bits (393), Expect = 1e-46
Identities = 41/194 (21%), Positives = 83/194 (42%), Gaps = 16/194 (8%)
Query: 32 ILTPGETVEYLEGYMTGHGTFPDDEEIKASVGGVVEKVNQLVSVRAMNSRYIGEIGEVVV 91
I+ PG+ + G+GT+ + ++ A + G+ ++ V V + RY +G+VV+
Sbjct: 4 IVLPGDLLST-NPRAAGYGTYVEGGKVYAKIIGLFDQTETHVRVIPLKGRYTPSVGDVVI 62
Query: 92 GRVTGLQSQKWVVDTNSILESALHLTSVNLPGGEQRRRSVQDEEMMREFLKEGDLISAEI 151
G + + + W VD S ++ L ++ P + ++ E L GD I A++
Sbjct: 63 GIIREVAANGWAVDIYSPYQAFLPVSEN--PEMKPNKK-------PNEVLDIGDAIIAKV 113
Query: 152 HQISTEGSLTLHTRSLKYGKLGQGILLTVPPSLIRRSKSHFC------NLACGAQVILGC 205
I + +TL + + G ++ + P+ + R Q+++G
Sbjct: 114 LNIDPKMKVTLTMKDRICRPIRFGRIVAINPARVPRVIGKKGSMIKLLKSELDVQIVVGQ 173
Query: 206 NGYVWVSAIDENKS 219
NG +WV+ S
Sbjct: 174 NGLIWVNGDRRKVS 187
>2z0s_A Probable exosome complex RNA-binding protein 1; alpha/beta protein,
cytoplasm, structural genomics, NPPSFA; 3.20A {Aeropyrum
pernix} SCOP: b.40.4.5 d.51.1.1
Length = 235
Score = 149 bits (377), Expect = 5e-44
Identities = 42/235 (17%), Positives = 88/235 (37%), Gaps = 19/235 (8%)
Query: 26 HEFTDPILTPGETVEYLEGYMTGHGTFPDDEEIKASVGGVVEKVNQL--VSVRAMNSRYI 83
+ I+ PGE + E + +A+V G++ + + + Y+
Sbjct: 5 RQLAGRIVVPGEPLPE-EVEASPPYVIDYKGVKRATVVGLLREKGDGGGRAFVKLKEIYV 63
Query: 84 GEIGEVVVGRVTGLQSQKWVVDTNSILESALHLTSVNLPGGEQRRRSVQDEEMMREFLKE 143
+ G+VV+G + + W VD NS + L + R + M+ LK
Sbjct: 64 PQAGDVVIGLIQSVGIMNWFVDINSPYVAVLSVQDF------LGRPFNPAVDDMQSLLKV 117
Query: 144 GDLISAEIHQISTEGSLTLHTRSLKYGKLGQGILLTVPPSLIRRSKSHFCNL------AC 197
GD I A++ S L + G++ +G ++ + P+ + R ++
Sbjct: 118 GDYIKAKVVAFDKTRSPLLTVQGEGLGRIVRGKIVEISPAKVPRVIGRKMSMLKTLEEKT 177
Query: 198 GAQVILGCNGYVWVSAIDENKSGGFIQNMEVVKLSDRE-TITRLNNVIKALAESK 251
++ + NG + + +E+ + +K+ D E + L I E +
Sbjct: 178 ECKIFVARNGRIHLECPNEDLE---AIAVMAIKIIDEEAYTSGLTKRIIKFIEEE 229
>2nn6_G Exosome complex exonuclease RRP40; RNA, exosome, PM/SCL,
phosphorolytic, hydrolase/transferase complex; 3.35A
{Homo sapiens} SCOP: b.40.4.5 b.84.4.2 d.51.1.1
Length = 289
Score = 149 bits (377), Expect = 2e-43
Identities = 45/256 (17%), Positives = 89/256 (34%), Gaps = 33/256 (12%)
Query: 14 LASDRIDPLIEIHEFTDPILTPGETVEYLEGYMTGHGTFPDDEEIKASVGGVV------- 66
L + + L+ + G G + + + G +
Sbjct: 48 LLLPEQEDAEGPGGAVERPLSLNARACSRVRVVCGPGLRRCGDRLLVTKCGRLRHKEPGS 107
Query: 67 EKVNQLVSVRAMNSRYIGEIGEVVVGRVTGLQSQKWVVDTNSILESALHLTSVNLPGGEQ 126
+ V + RY+ G+ V+G VT + VD ++L ++ G +
Sbjct: 108 GSGGGVYWVDSQQKRYVPVKGDHVIGIVTAKSGDIFKVDVGGSEPASLSY--LSFEGATK 165
Query: 127 RRRSVQDEEMMREFLKEGDLISAEIHQISTEGSLTL-----HTRSLKYGKLGQ-GILLTV 180
R R ++ GDLI + + + + R+ G +GQ G+L V
Sbjct: 166 R---------NRPNVQVGDLIYGQFVVANKDMEPEMVCIDSCGRANGMGVIGQDGLLFKV 216
Query: 181 PPSLIRRSKSHFCNL------ACGAQVILGCNGYVWVSAIDENKSGGFIQNMEVVKLSDR 234
LIR+ + C + +++ G NG +WV A ++ + +++ +
Sbjct: 217 TLGLIRKLLAPDCEIIQEVGKLYPLEIVFGMNGRIWVKAKTIQQT---LILANILEACEH 273
Query: 235 ETITRLNNVIKALAES 250
T + + LAES
Sbjct: 274 MTSDQRKQIFSRLAES 289
>2je6_I RRP4, exosome complex RNA-binding protein 1; nuclease, hydrolase,
exonuclease, phosphorolytic, exoribonuclease, RNA
degradation; HET: 1PE; 1.6A {Sulfolobus solfataricus}
SCOP: b.40.4.5 b.84.4.2 d.51.1.1 PDB: 2jea_I* 2jeb_I*
3l7z_C
Length = 251
Score = 145 bits (366), Expect = 2e-42
Identities = 50/230 (21%), Positives = 93/230 (40%), Gaps = 21/230 (9%)
Query: 32 ILTPGETVEYLEGYMTGHGTF--PDDEEIKASVGGVVEKVNQLVSVRAMN-SRYIGEIGE 88
I+ PGE + E + + + + ++V G+ + + V + S Y +I +
Sbjct: 18 IVVPGELLAEGE-FQIPWSPYILKINSKYYSTVVGLFDVKDTQFEVIPLEGSFYYPKIND 76
Query: 89 VVVGRVTGLQSQKWVVDTNSILESALHLTSVNLPGGEQRRRSVQDEEMMREFLKEGDLIS 148
+V+G V ++ WVVD + ++ LP RS+ E +R +L GD +
Sbjct: 77 IVIGLVEDVEIYGWVVDIKAPYKA-------YLPASNLLGRSINVGEDLRRYLDVGDYVI 129
Query: 149 AEIHQISTEGSLTLHTRSLKYGKLGQGILLTVPPSLIRR----SKSHFCNL--ACGAQVI 202
A I L + G++ GI++ + P + R +KS + L G +
Sbjct: 130 ARIENFDRSIDPVLSVKGKDLGRVSNGIVIDIMPVKVPRVIGKNKSMYETLTSKSGCSIF 189
Query: 203 LGCNGYVWVSAIDENKSGGFIQNMEVVKLSDRE-TITRLNNVIKALAESK 251
+ NG +W + +E ++ + E I L + IK E K
Sbjct: 190 VANNGRIWATCPSRFSE---EILIEAIRKIENESHIKGLTDRIKQFIEEK 236
>3m7n_A Putative uncharacterized protein AF_0206; exosome, RNA,
exonuclease, hydrolase, nuclease, hydrolase-RN; 2.40A
{Archaeoglobus fulgidus} PDB: 2ba1_A 3m85_A
Length = 179
Score = 118 bits (297), Expect = 7e-33
Identities = 27/143 (18%), Positives = 62/143 (43%), Gaps = 4/143 (2%)
Query: 32 ILTPGETVEYLEGYMTGHGTFPDDEEIKASVGGVVEKVNQLVSVRAMNSRYIGEIGEVVV 91
+ PG+ + E Y+ G G + + E+ A+V G + +++ V +++ G+VV+
Sbjct: 3 FVMPGDRIGSAEEYVKGEGVYEEGGELFAAVAGKLIIKDRVAKVESISPIPEIVKGDVVL 62
Query: 92 GRVTGLQSQKWVVDTNSILESALHLTSVNLPGGEQRRRSVQDEEMMREFLKEGDLISAEI 151
GRV L++ +++ +S ++ + + + E + D++ A +
Sbjct: 63 GRVVDLRNSIALIEVSSKKGENRGPSNRGIGILHVSNVDEGYVKEISEAVGYLDILKARV 122
Query: 152 HQISTEGSLTLHTRSLKYGKLGQ 174
+L L T+ + G L
Sbjct: 123 I----GDNLRLSTKEEEMGVLRA 141
>2ja9_A Exosome complex exonuclease RRP40; RNA-binding protein, RNA, S1
domain, KH domain, hydrolase, RNA-binding, nuclear
protein; 2.20A {Saccharomyces cerevisiae} SCOP: b.40.4.5
d.51.1.1
Length = 175
Score = 113 bits (283), Expect = 6e-31
Identities = 32/146 (21%), Positives = 55/146 (37%), Gaps = 23/146 (15%)
Query: 81 RYIGEIGEVVVGRVTGLQSQKWVVDTNSILESALHLTSVNLPGGEQRRRSVQDEEMMREF 140
RYI + + V+G + G S + V + S L+ + P ++ R
Sbjct: 2 RYIPSVNDFVIGVIIGTFSDSYKVSLQNFSSSVS-LSYMAFPNASKK---------NRPT 51
Query: 141 LKEGDLISAEIHQISTEGSLT------LHTRSLKYGKLGQGILLTVPPSLIRR--SKSHF 192
L+ GDL+ A + E R +G L G+++ V + R+ + F
Sbjct: 52 LQVGDLVYARVCTAEKELEAEIECFDSTTGRDAGFGILEDGMIIDVNLNFARQLLFNNDF 111
Query: 193 CNLA-----CGAQVILGCNGYVWVSA 213
L +V +G NG +WV
Sbjct: 112 PLLKVLAAHTKFEVAIGLNGKIWVKC 137
>2nn6_I 3'-5' exoribonuclease CSL4 homolog; RNA, exosome, PM/SCL,
phosphorolytic, hydrolase/transferase complex; 3.35A
{Homo sapiens} SCOP: b.40.4.5 b.84.4.2
Length = 209
Score = 110 bits (275), Expect = 2e-29
Identities = 33/148 (22%), Positives = 64/148 (43%), Gaps = 7/148 (4%)
Query: 32 ILTPGETVEYLEGYMTGHGTFPDDEEIKASVGGVVEKVN-----QLVSV-RAMNSRYIGE 85
PGE + LE G GT+ I +S+ G + K + +VSV R S+ + +
Sbjct: 21 YCIPGERLCNLEEGSPGSGTYTRHGYIFSSLAGCLMKSSENGALPVVSVVRETESQLLPD 80
Query: 86 IGEVVVGRVTGLQSQKWVVDTNSILESALHLTSVNLPGGEQRRRSVQDEEMMREFLKEGD 145
+G +V +V+ + S+ V + L + E R + +D+ + + + GD
Sbjct: 81 VGAIVTCKVSSINSRFAKVHILYVGSMPLKNSFRGTIRKEDVRATEKDKVEIYKSFRPGD 140
Query: 146 LISAEIHQISTEGS-LTLHTRSLKYGKL 172
++ A++ + S L T + G +
Sbjct: 141 IVLAKVISLGDAQSNYLLTTAENELGVV 168
>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 = 40.4 bits (94), Expect = 6e-04
Identities = 51/322 (15%), Positives = 93/322 (28%), Gaps = 133/322 (41%)
Query: 21 PLIEIHEFTDPI-------LTPGETVEYLEGYMTGHG----------TFPDDEEIKASVG 63
PLI + + + TPGE YL+G TGH E SV
Sbjct: 239 PLIGVIQLAHYVVTAKLLGFTPGELRSYLKG-ATGHSQGLVTAVAIAETDSWESFFVSVR 297
Query: 64 GVVE-------KVNQLVSVRAMNSRYIGEIGEVVVGR------VTGL---QSQKWVVDTN 107
+ + + ++ + + E G ++ L Q Q +V TN
Sbjct: 298 KAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTN 357
Query: 108 SIL--ESALHLTSVN-------------L-------------PGGEQRR-----RSVQDE 134
S L + ++ VN L G +Q R R +
Sbjct: 358 SHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKL--- 414
Query: 135 EMMREFLKEGDLISAEIH---------QIST---EGSLTLHTRSLK---Y----GK---- 171
+ FL +++ H I+ + +++ + + ++ Y G
Sbjct: 415 KFSNRFLP----VASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRV 470
Query: 172 LGQGI-------LLTVP---PSLIRRSKSHFCNL-----------------ACGAQVILG 204
L I ++ +P + + +H + G +VI+
Sbjct: 471 LSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRVIVA 530
Query: 205 CNGYVWVSAIDENKSG--GFIQ 224
+D N GF Q
Sbjct: 531 -------GTLDINPDDDYGFKQ 545
Score = 36.6 bits (84), Expect = 0.012
Identities = 40/237 (16%), Positives = 73/237 (30%), Gaps = 89/237 (37%)
Query: 112 SALHLTSVN------LPGGEQRRRSVQD-EEMMREFLKEGDLISAEIHQISTEGSLTLHT 164
S L + N GGE+ +R ++ M+ E + +G L + +I + + H+
Sbjct: 1660 SILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFK-----EINEHS 1714
Query: 165 RSLKY----GKLG-----QGILLTVPPSLIRRSKS------------H----FCNLACGA 199
S + G L Q L + + KS H + LA A
Sbjct: 1715 TSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLA 1774
Query: 200 QV--------------------------------ILGCN-GYVWVSAIDE---------- 216
V ++ N G V S E
Sbjct: 1775 DVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVG 1834
Query: 217 NKSGGFIQ----NME---VVKLS-DRETITRLNNVIKALAESKVMLFDTSIQYAYEE 265
++G ++ N+E V + D + + NV+ + K+ + + + EE
Sbjct: 1835 KRTGWLVEIVNYNVENQQYV-AAGDLRALDTVTNVLNFIKLQKIDIIELQKSLSLEE 1890
Score = 33.5 bits (76), Expect = 0.088
Identities = 15/73 (20%), Positives = 25/73 (34%), Gaps = 21/73 (28%)
Query: 56 EEIKASVGGVVEKVNQLVSVRAMNSRYIGEIGEVVV--GRVTGLQSQKWVVDTNSI---- 109
E + G +VE VN N + V G + L + V++ +
Sbjct: 1831 ERVGKRTGWLVEIVN-------YNVE-----NQQYVAAGDLRALDTVTNVLNFIKLQKID 1878
Query: 110 ---LESALHLTSV 119
L+ +L L V
Sbjct: 1879 IIELQKSLSLEEV 1891
>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 = 40.6 bits (94), Expect = 6e-04
Identities = 36/332 (10%), Positives = 90/332 (27%), Gaps = 111/332 (33%)
Query: 24 EIHEFTDPILTPGETVEYLEGYMTGHGTFPDDEE-IKASVGGVVEKVNQLVSVRAMNSRY 82
++ + IL+ E + D ++ K ++V ++
Sbjct: 37 DVQDMPKSILSKEEIDHIIMS--------KDAVSGTLRLFWTLLSKQEEMVQ------KF 82
Query: 83 IGEIGEVVVGRVTGLQSQ-KWVVDT------NSILESALHLTSVN-LPGGEQ--RRRSVQ 132
+ E+ L+ K+++ + + +++ + L Q + +V
Sbjct: 83 VEEV----------LRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVS 132
Query: 133 DEEMMREFLKEGDLISAEIHQISTEGSLTLHTRSLKYGKLGQGILLTVPPSLIRRSKSHF 192
+ + L++ + ++ ++ + G LG G K+
Sbjct: 133 RLQPYLK-LRQA------LLELRPAKNVLID------GVLGSG-------------KTWV 166
Query: 193 CNLACGAQVILGC--NGYVWVSAIDENKSGGFIQNM------------------------ 226
C + + W++ + N ++ +
Sbjct: 167 ALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLR 226
Query: 227 -EVVKLSDRETITR---------LNNV-----IKALA-ESKVMLF--DTSI------QYA 262
++ R + L NV A K++L +
Sbjct: 227 IHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATT 286
Query: 263 YEESLKYSTYDLLKPESKLDLVLCTAQKLQTL 294
SL + + L E K L+ + Q L
Sbjct: 287 THISLDHHSMTLTPDEVKSLLLKYLDCRPQDL 318
Score = 36.4 bits (83), Expect = 0.012
Identities = 41/312 (13%), Positives = 100/312 (32%), Gaps = 67/312 (21%)
Query: 4 EKDKPVIEIMLA-SDRIDP--LIEIHEFTDPILTPGETVEYLEGYMTGHGTFP------D 54
+ V+E++ +IDP ++ L L + +
Sbjct: 193 NSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSK-PYENCLLVLL 251
Query: 55 D----EEIKASVGGVVEKVNQLVSVRAMNSRYIGEIGEVVVGRVTGLQSQKWVV---DTN 107
+ + A K+ L++ R + + ++ L + +
Sbjct: 252 NVQNAKAWNAFNLSC--KI--LLTTR--FKQVTDFLSAATTTHIS-LDHHSMTLTPDEVK 304
Query: 108 SILESALHLTSVNLPGGEQRRRSVQDEEMMREFLKEGDLISAEIHQISTEGSLTL-HTRS 166
S+L L +LP E++ + +I+ I +G T + +
Sbjct: 305 SLLLKYLDCRPQDLP-----------REVLTTNPRRLSIIAESIR----DGLATWDNWKH 349
Query: 167 LKYGKLGQGILLTV---PPSLIRRSKSHFCNLAC-------GAQVILGCNGYVWVSAIDE 216
+ KL I ++ P+ R+ F L+ ++ +W + +
Sbjct: 350 VNCDKLTTIIESSLNVLEPAEYRK---MFDRLSVFPPSAHIPTILL----SLIW-FDVIK 401
Query: 217 NKSGGFIQNMEVVKLSDR---ETITRLNNV---IKALAESKVMLFDTSIQYAYEESLKYS 270
+ + + L ++ E+ + ++ +K E++ L + + + Y +
Sbjct: 402 SDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDH-YNIPKTFD 460
Query: 271 TYDLLKPESKLD 282
+ DL+ P LD
Sbjct: 461 SDDLIPP--YLD 470
>2gnx_A Hypothetical protein; structural genomics, protein structure
initiative, PSI, center for eukaryotic structural
genomics, CESG, unknown function; 2.45A {Mus musculus}
SCOP: a.246.3.1 d.109.3.1
Length = 344
Score = 28.2 bits (62), Expect = 3.2
Identities = 27/112 (24%), Positives = 46/112 (41%), Gaps = 7/112 (6%)
Query: 183 SLIRRSKSHFCNL---ACGAQVILGCNGYVWVSAIDENKSGGFIQNMEVVKLSDRETITR 239
S IR+ + +L G++ G +GY + E G Q VV L +
Sbjct: 202 SFIRKYDAANVSLIFDNRGSESFQG-HGYHHPHSYREAP-KGVDQYPAVVSLPSDRPVMH 259
Query: 240 LNNVIKALAESKVMLFDT-SIQYAYEESLKYSTYDLLKPESKLDLVLCTAQK 290
NVI + + L + + Y++ ++ STY L +PE +V+ K
Sbjct: 260 WPNVIMIMTDRASDLNSLEKVVHFYDDKVQ-STYFLTRPEPHFTIVVIFESK 310
>3f6t_A Aspartate aminotransferase; YP_194538.1, STRU genomics, joint
center for structural genomics, JCSG, prote structure
initiative; HET: LLP; 2.15A {Lactobacillus acidophilus
ncfm}
Length = 533
Score = 28.3 bits (63), Expect = 4.0
Identities = 10/108 (9%), Positives = 31/108 (28%)
Query: 44 GYMTGHGTFPDDEEIKASVGGVVEKVNQLVSVRAMNSRYIGEIGEVVVGRVTGLQSQKWV 103
G + + D+ I + ++++ S ++ + I + +
Sbjct: 323 GVIALNEKNVFDDNIAHLDKVELRQLHKRYSSVVLDPDKMKFIDRLCADSRSIGLYHTAG 382
Query: 104 VDTNSILESALHLTSVNLPGGEQRRRSVQDEEMMREFLKEGDLISAEI 151
+ T + AL + L + + + D + +
Sbjct: 383 LSTPQQIMEALFSMTHLLTSTNGGSDDPYIDIARKLVSERYDQLHDAM 430
>1dlf_H Anti-dansyl immunoglobulin IGG2A(S); FV fragment; 1.45A {Mus
musculus} SCOP: b.1.1.1 PDB: 2dlf_H 1wz1_H* 3iy5_B
2uud_H*
Length = 124
Score = 26.3 bits (59), Expect = 7.7
Identities = 11/35 (31%), Positives = 15/35 (42%), Gaps = 2/35 (5%)
Query: 207 GYVWVSAIDENKSGGFIQNMEVVKLSDRETITRLN 241
G WV+ I + E VK R TI+R +
Sbjct: 44 GLEWVAEIRNKANNHATYYAESVK--GRFTISRDD 76
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
0.316 0.134 0.375
Gapped
Lambda K H
0.267 0.0789 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,488,672
Number of extensions: 273181
Number of successful extensions: 753
Number of sequences better than 10.0: 1
Number of HSP's gapped: 733
Number of HSP's successfully gapped: 23
Length of query: 298
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 205
Effective length of database: 4,105,140
Effective search space: 841553700
Effective search space used: 841553700
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 (21.6 bits)
S2: 57 (25.6 bits)