RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8135
(295 letters)
>1hu3_A EIF4GII; heat repeat, translation; 2.37A {Homo sapiens} SCOP:
a.118.1.14
Length = 260
Score = 193 bits (490), Expect = 9e-61
Identities = 100/263 (38%), Positives = 150/263 (57%), Gaps = 26/263 (9%)
Query: 21 QDATFRKVRELLNKLTPEKFDKLSDDLLQLDLNSSKILKGVILLIFEKALHETKYTSMYA 80
FRKVR +LNKLTP+ F++L + L +++ + LKGVI L+FEKA+ E ++ YA
Sbjct: 8 TQELFRKVRSILNKLTPQMFNQLMKQVSGLTVDTEERLKGVIDLVFEKAIDEPSFSVAYA 67
Query: 81 RLCKRL-TEQAPNFEPPDESCTFKKHLLWVCKNEFENRSRATEAFGNLP----------- 128
+C+ L T + P + P + F+K LL C+ EFE + F
Sbjct: 68 NMCRCLVTLKVPMADKPGNTVNFRKLLLNRCQKEFEKDKADDDVFEKKQKELEAASAPEE 127
Query: 129 ---LSPDDEDRRQLAKQKMLGNIKFIGELGKHEIVTESILHTCIQELLPKNRKVQTNKDV 185
L + E+ + A+++ +GNIKFIGEL K +++TE+I+H C+ +LL
Sbjct: 128 RTRLHDELEEAKDKARRRSIGNIKFIGELFKLKMLTEAIMHDCVVKLLK--------NHD 179
Query: 186 SENLECLCQIMKTCGRILDSEKGQGLMNQYFSRMKTVQTSTPHLPLRIRFMLQDVEDLRR 245
E+LECLC+++ T G+ LD EK + M+QYF++M+ + RIRFMLQDV DLR
Sbjct: 180 EESLECLCRLLTTIGKDLDFEKAKPRMDQYFNQMEKIVKE-RKTSSRIRFMLQDVIDLRL 238
Query: 246 NNWVPRQANNPEKPVPINQIIEE 268
NWV R+A+ + P I QI +E
Sbjct: 239 CNWVSRRAD--QGPKTIEQIHKE 259
>2vso_E Eukaryotic initiation factor 4F subunit P150; acetylation,
ATP-binding, phosphoprotein, protein biosynthesis,
translation regulation; HET: AMP; 2.6A {Saccharomyces
cerevisiae} PDB: 2vsx_E*
Length = 284
Score = 178 bits (451), Expect = 1e-54
Identities = 70/282 (24%), Positives = 122/282 (43%), Gaps = 39/282 (13%)
Query: 2 TRWIPPSALRR-------DALTPENVQDATFRKVRELLNKLTPEKFDKLSDDLLQLDLNS 54
RW+P ++ D T +D RK++ LLNKLT E FD +S ++L + S
Sbjct: 7 NRWVPKFKSKKTEKKLAPDGKTELLDKDEVERKMKSLLNKLTLEMFDAISSEILAIANIS 66
Query: 55 SKI-----LKGVILLIFEKALHETKYTSMYARLCKRLTE------QAPNFEPPDESCTFK 103
LK VI IF KA E ++SMYA+LC ++ + E
Sbjct: 67 VWETNGETLKAVIEQIFLKACDEPHWSSMYAQLCGKVVKELNPDITDETNEGKTGPKLVL 126
Query: 104 KHLLWVCKNEFENRSRATEAFGNLP------LSPDDEDRRQLAKQKMLGNIKFIGELGKH 157
+L+ C EF+ + ++ AK++ LG ++FIG L +
Sbjct: 127 HYLVARCHAEFDKGWTDKLPTNEDGTPLEPEMMSEEYYAAASAKRRGLGLVRFIGFLYRL 186
Query: 158 EIVTESILHTCIQELLPKNRKVQTNKDVSENLECLCQIMKTCGRILDS---------EKG 208
++T ++ C + L+ K T+ E LE + +++ T G ++ +G
Sbjct: 187 NLLTGKMMFECFRRLM----KDLTDSPSEETLESVVELLNTVGEQFETDSFRTGQATLEG 242
Query: 209 QGLMNQYFSRMKTVQTSTPHLPLRIRFMLQDVEDLRRN-NWV 249
L++ F + + + + RI+F L D+++LR + NW
Sbjct: 243 SQLLDSLFGILDNIIQT-AKISSRIKFKLIDIKELRHDKNWN 283
>2i2o_A EIF4G-like protein; protein structure initiative, PSI, cente
eukaryotic structural genomics, CESG, structural
genomics, function; HET: MSE; 1.92A {Danio rerio}
Length = 224
Score = 167 bits (424), Expect = 3e-51
Identities = 39/231 (16%), Positives = 82/231 (35%), Gaps = 34/231 (14%)
Query: 32 LNKLTPEKFDKLSDDLLQLDLNSSKI--LKGVILLIFEKALHETKYTSMYARLCKRLTEQ 89
+ FD + LL+ L L+ V +I +++L + ++ R+C + +
Sbjct: 8 KEDYKIQSFDLETQKLLKTALKDPGSVDLEKVSSVIVDQSLKDQVFSREAGRICYTIVQA 67
Query: 90 APNFEPPDESCTFKKHLLWVCKNEFENRSRATEAFGNLPLSPDDEDRRQLAKQKMLGNIK 149
F+++LL + EF+ R E+ R+ + Q+ + +
Sbjct: 68 EAK---QTNGSVFRRNLLNRLQQEFKAR----------------EETRKRSTQEWVCLVS 108
Query: 150 FIGELGKHEIVTES-------ILHTCIQELLPKNRKVQTNKDVSENLECLCQIMKTCGRI 202
FI + + V ++ C+ L E ++CL + G
Sbjct: 109 FICNIFDYLKVNNMPMVALVHPVYDCLFRLAQS-----DALKNEEEVDCLVLQLHRIGDQ 163
Query: 203 LDSEKGQGLMNQYFSRMKTVQTSTPHLPLRIRFMLQDVEDLRRNNWVPRQA 253
L+ Q LM++ F+ ++ L R +L ++ + R W
Sbjct: 164 LEKMNVQ-LMDELFNLLRDGFLLQEDLSSMGRLLLLEILEFRAGGWKLSDT 213
>3rk6_A Polyadenylate-binding protein-interacting protein; heat fold, PABP,
EIF4A, EIF3, translation regulator; 2.00A {Homo sapiens}
Length = 234
Score = 158 bits (399), Expect = 2e-47
Identities = 50/250 (20%), Positives = 101/250 (40%), Gaps = 37/250 (14%)
Query: 11 RRDALTPENVQDATFRKVRELLNKLT--PEKFDKLSDDLLQL---DLNSSKILKGVILLI 65
V++ LN LT P F+ + + + + L+ ++ LI
Sbjct: 6 SMTGGQQMGRGSTLSEYVQDFLNHLTEQPGSFETEIEQFAETLNGCVTTDDALQELVELI 65
Query: 66 FEKALHETKYTSMYARLCKRLTEQAPNFEPPDESCTFKKHLLWVCKNEFENRSRATEAFG 125
+++A ++ M ARLC L+ +S F++ LL C+ E+E + +A
Sbjct: 66 YQQATSIPNFSYMGARLCNYLSHHLTIS---PQSGNFRQLLLQRCRTEYEVKDQA----- 117
Query: 126 NLPLSPDDEDRRQLAKQKMLGNIKFIGEL--------GKHEIVTESILHTCIQELLPKNR 177
++ +++ + F+GEL ++ IL ++ELL
Sbjct: 118 --------AKGDEVTRKRFHAFVLFLGELYLNLEIKGTNGQVTRADILQVGLRELLNAL- 168
Query: 178 KVQTNKDVSENLECLCQIMKTCGRILDS---EKGQGLMNQYFSRMKTVQTSTPHLPLRIR 234
+ + +NL C +++K G +L+ EKG+ M + R++ V + ++
Sbjct: 169 ---FSNPMDDNLICAVKLLKLTGSVLEDAWKEKGKMDMEEIIQRIENVVLD-ANCSRDVK 224
Query: 235 FMLQDVEDLR 244
ML + +LR
Sbjct: 225 QMLLKLVELR 234
>1uw4_B UPF2, regulator of nonsense transcripts 2; nonsense mediated mRNA
decay protein, RNA-binding protein, N domain, MIF4G
domain; 1.95A {Homo sapiens} SCOP: a.118.1.14
Length = 248
Score = 63.8 bits (155), Expect = 4e-12
Identities = 26/193 (13%), Positives = 65/193 (33%), Gaps = 36/193 (18%)
Query: 92 NFEPPDESCTFKKHLLWVCKNEFENR----------SRATEAFG---------NLPLSPD 132
++ + ++ + ++ + E G ++ L +
Sbjct: 32 PWQDQEVKDYVICCMINIWNVKYNSIHCVANLLAGLVLYQEDVGIHVVDGVLEDIRLGME 91
Query: 133 DEDRRQLAKQKMLGNIKFIGELGKHEIVTESILHTCIQELL---PKNRKVQTNKDVSEN- 188
+ Q+ + + KF+GEL + +V +++ + ++ D E+
Sbjct: 92 VNQPKF--NQRRISSAKFLGELYNYRMVESAVIFRTLYSFTSFGVNPDGSPSSLDPPEHL 149
Query: 189 --LECLCQIMKTCGRILDSEKGQGLMNQYFS---------RMKTVQTSTPHLPLRIRFML 237
+ +C I+ TCG+ D + ++ + + V T P+ I +M+
Sbjct: 150 FRIRLVCTILDTCGQYFDRGSSKRKLDCFLVYFQRYVWWKKSLEVWTKDHPFPIDIDYMI 209
Query: 238 QDVEDLRRNNWVP 250
D +L R
Sbjct: 210 SDTLELLRPKIKL 222
>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 = 50.0 bits (119), Expect = 5e-07
Identities = 67/376 (17%), Positives = 107/376 (28%), Gaps = 134/376 (35%)
Query: 6 PPSALRRDALTPE-----------NVQDATFRKVREL-------LNKLTPEKFDKLSDDL 47
SAL R N D F ++R+L + L + LS+ L
Sbjct: 141 SNSALFRAVGEGNAQLVAIFGGQGNTDD-YFEELRDLYQTYHVLVGDLIKFSAETLSE-L 198
Query: 48 LQLDLNSSKIL-KGVILLIF---EKALHETKYT-----SM----------YARLCKRLTE 88
++ L++ K+ +G+ +L + + Y S Y K L
Sbjct: 199 IRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGF 258
Query: 89 QAPNFEPPDESCT-FKKHLL----------WVCKNEFENRS------------RATEAFG 125
+ T + L+ W F R EA+
Sbjct: 259 TPGELRSYLKGATGHSQGLVTAVAIAETDSW---ESFFVSVRKAITVLFFIGVRCYEAYP 315
Query: 126 NLPLSP----DDEDRRQLAKQKMLGNIKFIGELGKHEIVTESILHTCIQELLPKNRKVQ- 180
N L P D + + ML I E V + + T LP ++V+
Sbjct: 316 NTSLPPSILEDSLENNEGVPSPMLS-IS--NL--TQEQVQDYVNKTNSH--LPAGKQVEI 368
Query: 181 --TNKD----VS---ENLECLCQIMKTCGRILDSEKGQGLMNQY---FSRMKTV------ 222
N VS ++L L L K ++Q FS K
Sbjct: 369 SLVNGAKNLVVSGPPQSLYGLN-------LTLRKAKAPSGLDQSRIPFSERKLKFSNRFL 421
Query: 223 QTSTP-HLPLRIRFMLQDV-----EDLRRNN--W------VP----------RQANNPEK 258
++P H L L +DL +NN + +P R +
Sbjct: 422 PVASPFHSHL-----LVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSIS 476
Query: 259 PVPINQIIEEDHDPVN 274
++ II PV
Sbjct: 477 ERIVDCIIRL---PVK 489
Score = 45.8 bits (108), Expect = 1e-05
Identities = 47/275 (17%), Positives = 84/275 (30%), Gaps = 106/275 (38%)
Query: 76 TSMYARLCKRLTEQAPNFEPPDESCTFKKHLLWVCKNEFENRSRATEAFGNLPLSPDDED 135
T+ + +L EQ F K L TE F + DDE
Sbjct: 24 TASFFI-ASQLQEQ------------FNKIL-----------PEPTEGF-----AADDE- 53
Query: 136 RRQLAKQKMLGNIKFIG---------ELGKHEIVTESIL-------------HTCIQELL 173
+++G KF+G ++G+ + V L H +LL
Sbjct: 54 --PTTPAELVG--KFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLL 109
Query: 174 PKNRKVQTNKDVSENLECLCQIMKTCGRILDSEK--------------------GQGLMN 213
+N E ++ R D + GQG +
Sbjct: 110 QENDTTLVKT--KELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTD 167
Query: 214 QYFSRMKTV-QTSTPHLPLRIRFMLQDVEDLRRNN---------------WVPRQANNPE 257
YF ++ + QT + I+F + + +L R W+ +N P+
Sbjct: 168 DYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPD 227
Query: 258 K------PV--PINQIIEEDHDPVNFILPHRNNGM 284
K P+ P+ +I+ H +++ + G
Sbjct: 228 KDYLLSIPISCPLIGVIQLAH----YVVTAKLLGF 258
Score = 42.0 bits (98), Expect = 2e-04
Identities = 38/262 (14%), Positives = 78/262 (29%), Gaps = 95/262 (36%)
Query: 26 RKVRELLNKLTPEKFDKLSDDLLQLDLNSSKILKGV----ILLIFE---KALHETKYT-- 76
+++RE + + F+ + D L+ + KI K + F L T++T
Sbjct: 1682 KRIRENYSAMI---FETIVDGKLK----TEKIFKEINEHSTSYTFRSEKGLLSATQFTQP 1734
Query: 77 -------SMYARLCKRLTEQAPNFEPPDESCTFKKH-L-----LWVCKNE---FEN---- 116
+ + L + P D TF H L L + E+
Sbjct: 1735 ALTLMEKAAFEDLKSK------GLIPAD--ATFAGHSLGEYAAL-ASLADVMSIESLVEV 1785
Query: 117 -RSRATEAFGNLP--LSPDDEDRRQLAKQKMLG-NIKFIGELGKHEIVTESILHTCIQEL 172
R G P DE R + M+ N + E + ++ +
Sbjct: 1786 VFYR-----GMTMQVAVPRDELGR--SNYGMIAINPGRVAASFSQEALQY-----VVERV 1833
Query: 173 LPK-NRKVQT---NKD-----VS---ENLECLCQIMKTCGRILDSEKGQGLMNQYFSRMK 220
+ V+ N + + L+ + ++ F +++
Sbjct: 1834 GKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLN------------------FIKLQ 1875
Query: 221 TVQTSTPHLPLRIRFMLQDVED 242
+ + L+ L++VE
Sbjct: 1876 KIDI----IELQKSLSLEEVEG 1893
>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 = 36.8 bits (84), Expect = 0.008
Identities = 49/316 (15%), Positives = 96/316 (30%), Gaps = 79/316 (25%)
Query: 4 WIPPSALRRDALTPENVQDATFRKVRELLN------KLT---PEKFDKLSDDLLQLDLNS 54
++ S ++ + P + + L N K + + KL LL+L
Sbjct: 93 FLM-SPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAK 151
Query: 55 SKILKGVILLIFEKALHETKYTSMYARLCKRLTEQAPNFEPPDESCTFKKHLLWVCKNEF 114
+ ++ G +L K T + +C Q C + W+
Sbjct: 152 NVLIDG--VLGSGK-------TWVALDVCLSYKVQ----------CKMDFKIFWL----- 187
Query: 115 ENRSRATEAFGNLPLSPDDEDRRQLAK-QKMLGNI-KFIGELGKHEIVTESILHTCIQEL 172
N + L QK+L I H + +H+ EL
Sbjct: 188 --------NLKN-----CNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAEL 234
Query: 173 LPKNRKVQTNK----------DVSENLECL------CQIMKTCGRILDSEKGQGLMNQYF 216
R++ +K +V N + C+I+ T ++ +
Sbjct: 235 ----RRLLKSKPYENCLLVLLNVQ-NAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHI 289
Query: 217 SRMKTVQTSTPH--LPLRIRFMLQDVEDLRRNNWVPRQANNPEKPVPINQIIEEDHDPVN 274
S T TP L ++++ +DL PR+ P ++ I E D +
Sbjct: 290 SLDHHSMTLTPDEVKSLLLKYLDCRPQDL------PREVLT-TNPRRLSIIAESIRDGLA 342
Query: 275 FILPHRNNGMKEYSSI 290
++ + ++I
Sbjct: 343 TWDNWKHVNCDKLTTI 358
Score = 34.1 bits (77), Expect = 0.059
Identities = 47/260 (18%), Positives = 84/260 (32%), Gaps = 54/260 (20%)
Query: 10 LRRDALTPENVQDATFRKVREL----LNKLTPEKFDKLSDDLLQLDLNSSKILKGVILLI 65
+R T +N + K+ + LN L P ++ K+ D L S+ I ++ LI
Sbjct: 337 IRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFP-PSAHIPTILLSLI 395
Query: 66 FEKALHETKYTSMYARLCKR-LTEQAPN---FEPPDESCTFKKHLLWVCKNEFE------ 115
+ + + +L K L E+ P P K +NE+
Sbjct: 396 WFDVIKSDVMVVV-NKLHKYSLVEKQPKESTISIPSIYLELKVK----LENEYALHRSIV 450
Query: 116 NRSRATEAFGNLPLSPDDEDR-------RQLAKQKMLG----------NIKFIGELGKHE 158
+ + F + L P D+ L + + +F+ + +H+
Sbjct: 451 DHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHD 510
Query: 159 ----IVTESILHTCIQELLPKNRK-VQTNKDVSENLEC-LCQIMKTCGRILDSEKG---- 208
+ SIL+T Q L + + N E L + + L K
Sbjct: 511 STAWNASGSILNTLQQ--LKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLL 568
Query: 209 -QGLMNQ----YFSRMKTVQ 223
LM + + K VQ
Sbjct: 569 RIALMAEDEAIFEEAHKQVQ 588
>3haj_A Human pacsin2 F-BAR; pacsin,syndapin,FAP52,F-BAR, alternative
splicing, coiled coil, cytoplasmic vesicle, endocytosis,
phosphoprotein, polymorphism; 2.78A {Homo sapiens}
Length = 486
Score = 29.7 bits (65), Expect = 1.2
Identities = 23/170 (13%), Positives = 51/170 (30%), Gaps = 10/170 (5%)
Query: 45 DDLLQLDLNSSKILKGVILLIFEKALHETKYTSMYARLCKRLTEQAPNFEPPDESCTFKK 104
++ + ++ ++ + E+A E Y +R E + T +K
Sbjct: 25 KRTVKRIDDGHRLCSDLMNCLHERARIEKAYAQQLTEWARRW---RQLVEKGPQYGTVEK 81
Query: 105 HLLWVCKNEFENRSRATEAFGNLPLSPDDEDRRQLAKQKMLGNIKFIGELGKHEIVTESI 164
+ +E E S S ++D ++ + K + K E
Sbjct: 82 AWMAF-MSEAERVSELHLEVKA---SLMNDDFEKIKNWQKEAFHKQMMGGFKETKEAEDG 137
Query: 165 LHTCIQELLPKNRKVQTNKDVSENLECLCQIMKTCGRILDSEKGQGLMNQ 214
+ K ++V+ K + C+ K + K +N
Sbjct: 138 FRKAQKPWAKKLKEVEAAK---KAHHAACKEEKLAISREANSKADPSLNP 184
>2itm_A Xylulose kinase, xylulokinase; ATPase, FGGY kinase, transferase;
HET: XUL; 2.10A {Escherichia coli} PDB: 2nlx_A
Length = 484
Score = 29.5 bits (67), Expect = 1.3
Identities = 12/46 (26%), Positives = 17/46 (36%), Gaps = 6/46 (13%)
Query: 80 ARLCKRLTEQAPNFE-----PPDESCTFKKHLLWVCKNEFENRSRA 120
A+ C L + P T K LLWV ++E E +
Sbjct: 102 AQECTLLEARVPQSRVITGNLMMPGFTAPK-LLWVQRHEPEIFRQI 146
>1ks9_A KPA reductase;, 2-dehydropantoate 2-reductase; PANE, APBA,
ketopantoate reductase, rossman fold, monomer, APO,
oxidoreductase; 1.70A {Escherichia coli} SCOP: a.100.1.7
c.2.1.6 PDB: 1yon_A* 1yjq_A* 2ofp_A*
Length = 291
Score = 28.4 bits (64), Expect = 2.4
Identities = 18/100 (18%), Positives = 35/100 (35%), Gaps = 19/100 (19%)
Query: 175 KNRKVQTNKDVSENL--ECLCQIMKTCGRILDSEKGQGLMNQYFSRMKTVQTSTPHLPLR 232
N +++ + + E +++ G +E + + Q +S
Sbjct: 193 PNGELRHHPQEIMQICEEV-AAVIEREGHHTSAEDLRDYVMQVIDATAENISS------- 244
Query: 233 IRFMLQDVEDLRR------NNWVPRQANNPEKPVPINQII 266
MLQD+ LR N ++ R+A VP N +
Sbjct: 245 ---MLQDIRALRHTEIDYINGFLLRRARAHGIAVPENTRL 281
>3g17_A Similar to 2-dehydropantoate 2-reductase; structural genomics,
putative 2-dehydropantoate 2-reductase, protein
structure initiative; 2.30A {Staphylococcus aureus
subsp}
Length = 294
Score = 28.4 bits (64), Expect = 2.7
Identities = 12/83 (14%), Positives = 24/83 (28%), Gaps = 17/83 (20%)
Query: 190 ECLCQIMKTCGRILDSEKGQGLMNQYFSRMKTVQTSTPHLPLRIRFMLQDVEDLRR---- 245
+ C++ + G + +M Y + TS M D+ +
Sbjct: 205 DG-CRVAQAEGLNFSEQTVDTIMTIYQGYPDEMGTS----------MYYDIVHQQPLEVE 253
Query: 246 --NNWVPRQANNPEKPVPINQII 266
++ R+A P I
Sbjct: 254 AIQGFIYRRAREHNLDTPYLDTI 276
>3aco_A Pacsin2, protein kinase C and casein kinase substrate in neurons
protein 2; helix bundle, coiled-coil, endocytosis; 2.70A
{Homo sapiens}
Length = 350
Score = 27.9 bits (61), Expect = 4.3
Identities = 24/170 (14%), Positives = 52/170 (30%), Gaps = 10/170 (5%)
Query: 45 DDLLQLDLNSSKILKGVILLIFEKALHETKYTSMYARLCKRLTEQAPNFEPPDESCTFKK 104
++ + ++ ++ + E+A E Y +R + E + T +K
Sbjct: 32 KRTVKRIDDGHRLCSDLMNCLHERARIEKAYAQQLTEWARRWRQLV---EKGPQYGTVEK 88
Query: 105 HLLWVCKNEFENRSRATEAFGNLPLSPDDEDRRQLAKQKMLGNIKFIGELGKHEIVTESI 164
+ +E E S ++ D E + K+ K + K E
Sbjct: 89 AWMAF-MSEAERVSELHLEVKASLMNDDFEKIKNWQKEAFH---KQMMGGFKETKEAEDG 144
Query: 165 LHTCIQELLPKNRKVQTNKDVSENLECLCQIMKTCGRILDSEKGQGLMNQ 214
+ K ++V+ K + C+ K + K +N
Sbjct: 145 FRKAQKPWAKKLKEVEAAK---KAHHAACKEEKLAISREANSKADPSLNP 191
>3abh_A Pacsin2, protein kinase C and casein kinase substrate in neurons
protein 2; helix bundle, coiled-coil, endocytosis; 2.00A
{Homo sapiens} PDB: 3q0k_A 3lll_A 3hah_A 3qni_A 3hai_A
3q84_A
Length = 312
Score = 27.9 bits (61), Expect = 4.5
Identities = 24/170 (14%), Positives = 52/170 (30%), Gaps = 10/170 (5%)
Query: 45 DDLLQLDLNSSKILKGVILLIFEKALHETKYTSMYARLCKRLTEQAPNFEPPDESCTFKK 104
++ + ++ ++ + E+A E Y +R + E + T +K
Sbjct: 32 KRTVKRIDDGHRLCSDLMNCLHERARIEKAYAQQLTEWARRWRQLV---EKGPQYGTVEK 88
Query: 105 HLLWVCKNEFENRSRATEAFGNLPLSPDDEDRRQLAKQKMLGNIKFIGELGKHEIVTESI 164
+ +E E S ++ D E + K+ K + K E
Sbjct: 89 AWMAF-MSEAERVSELHLEVKASLMNDDFEKIKNWQKEAFH---KQMMGGFKETKEAEDG 144
Query: 165 LHTCIQELLPKNRKVQTNKDVSENLECLCQIMKTCGRILDSEKGQGLMNQ 214
+ K ++V+ K + C+ K + K +N
Sbjct: 145 FRKAQKPWAKKLKEVEAAK---KAHHAACKEEKLAISREANSKADPSLNP 191
>3qxb_A Putative xylose isomerase; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-biology; 1.90A {Rhodospirillum rubrum}
Length = 316
Score = 27.4 bits (60), Expect = 5.6
Identities = 14/113 (12%), Positives = 28/113 (24%), Gaps = 5/113 (4%)
Query: 91 PNFEPPDESCTFKKHLLWVCKNEFENRSRATEAFG---NLPLSPDDEDRRQLAKQKMLGN 147
P + + + K S N L+P + + L Q +
Sbjct: 61 PWWPDIERDRRAIAYAKAFRKAGLTIESTFGGLASYTYNHFLAPT-LELQSLGYQHLKRA 119
Query: 148 IKFIGELGKHEIVTESILHTCIQELLPKNRKVQTNKDVSENLECLCQIMKTCG 200
I + ++ + L R+ + + L K G
Sbjct: 120 IDMTAAMEVPATGMPFGSYSA-ADALNPARREEIYAIARDMWIELAAYAKRQG 171
>3ego_A Probable 2-dehydropantoate 2-reductase; structural genomics, PANE,
unknown function, cytoplasm, NADP, oxidoreductase; 1.90A
{Bacillus subtilis}
Length = 307
Score = 27.2 bits (61), Expect = 7.6
Identities = 6/37 (16%), Positives = 14/37 (37%), Gaps = 6/37 (16%)
Query: 236 MLQDVEDLRR------NNWVPRQANNPEKPVPINQII 266
ML DV R+ ++ ++A+ + +
Sbjct: 249 MLVDVIGGRQTEADAIIGYLLKEASLQGLDAVHLEFL 285
>3qhq_A CSN2, SAG0897 family crispr-associated protein; helicase,
transferase; 2.00A {Streptococcus agalactiae}
Length = 229
Score = 26.8 bits (59), Expect = 7.9
Identities = 20/89 (22%), Positives = 37/89 (41%), Gaps = 17/89 (19%)
Query: 15 LTPENVQDATFRKVRELLNKLTPEKFDKLSD---------------DLLQLDLNSSKILK 59
LT E+V + + + + ++ KL D D+L D+NS+ ILK
Sbjct: 21 LTIEDVS--VYSSLVKHFYQYDVDEHLKLFDDKQKSLKATELMLVTDILGYDVNSAPILK 78
Query: 60 GVILLIFEKALHETKYTSMYARLCKRLTE 88
+ + + + + SM +L +TE
Sbjct: 79 LIHGDLENQFNEKPEVKSMVEKLAATITE 107
>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto;
diacyl lipopeptide, innate immunity, Leu repeat, cell
membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG;
2.90A {Mus musculus}
Length = 562
Score = 27.1 bits (60), Expect = 7.9
Identities = 9/25 (36%), Positives = 14/25 (56%)
Query: 33 NKLTPEKFDKLSDDLLQLDLNSSKI 57
N LT F L + LDL++++I
Sbjct: 438 NMLTGSVFRCLPPKVKVLDLHNNRI 462
>2x3v_A Syndapin I, protein kinase C and casein kinase substrate in N
protein 1; BAR, N-WAsp, dynamin, pacsin 1, endocytosis;
2.45A {Mus musculus} PDB: 2x3w_A 2x3x_A
Length = 337
Score = 26.8 bits (58), Expect = 9.0
Identities = 19/145 (13%), Positives = 44/145 (30%), Gaps = 7/145 (4%)
Query: 45 DDLLQLDLNSSKILKGVILLIFEKALHETKYTSMYARLCKRLTEQAPNFEPPDESCTFKK 104
++ + ++ ++ + E+A E Y KR E + + ++
Sbjct: 23 KRTVKRIDDGHRLCNDLMSCVQERAKIEKAYAQQLTDWAKRWR---QLIEKGPQYGSLER 79
Query: 105 HLLWVCKNEFENRSRATEAFGNLPLSPDDEDRRQLAKQKMLGNIKFIGELGKHEIVTESI 164
+ E + S + N S +ED ++ + K I K E
Sbjct: 80 AWGAM-MTEADKVSELHQEVKN---SLLNEDLEKVKNWQKDAYHKQIMGGFKETKEAEDG 135
Query: 165 LHTCIQELLPKNRKVQTNKDVSENL 189
+ K ++++ K
Sbjct: 136 FRKAQKPWAKKMKELEAAKKAYHLA 160
>2hek_A Hypothetical protein; predominantly alpha helical protein with GDP
binding site AN site being FAR from EACH other,
structural genomics, PSI; HET: GDP; 2.00A {Aquifex
aeolicus} SCOP: a.211.1.1
Length = 371
Score = 26.7 bits (59), Expect = 9.1
Identities = 15/72 (20%), Positives = 29/72 (40%), Gaps = 4/72 (5%)
Query: 25 FRKVRELLNKLTPEKFDKLSDDLLQLDLNSSKILKGVILLIFE----KALHETKYTSMYA 80
+K+ + F +L+D + +L K + IF+ K L T+ ++
Sbjct: 237 LKKLISQEDFTDINNFLRLNDAFVISELFKRKAFREDFERIFQRKHFKTLLSTENYEKFS 296
Query: 81 RLCKRLTEQAPN 92
+RL E+ P
Sbjct: 297 ETKERLLEKFPQ 308
>3s5u_A Putative uncharacterized protein; crispr, crispr adaptation
mechanism, NEW spacer aquisition, binding, DNA binding
protein; 2.70A {Enterococcus faecalis}
Length = 220
Score = 26.4 bits (58), Expect = 9.7
Identities = 11/56 (19%), Positives = 24/56 (42%)
Query: 33 NKLTPEKFDKLSDDLLQLDLNSSKILKGVILLIFEKALHETKYTSMYARLCKRLTE 88
K + D+L D+NS+ LK + + + + + SM +L +++
Sbjct: 52 QKGLKPTELFVVTDILGYDVNSAATLKLIYGDLEAQLNDKPEVKSMIEKLTGTISQ 107
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 0.136 0.404
Gapped
Lambda K H
0.267 0.0586 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,469,120
Number of extensions: 258029
Number of successful extensions: 646
Number of sequences better than 10.0: 1
Number of HSP's gapped: 616
Number of HSP's successfully gapped: 35
Length of query: 295
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 202
Effective length of database: 4,105,140
Effective search space: 829238280
Effective search space used: 829238280
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: 57 (26.0 bits)