RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5197
(564 letters)
>3k66_A Beta-amyloid-like protein; X-RAY amyloid precursor protein, heparin
binding, alternative splicing, developmental protein,
differentiation; 2.70A {Caenorhabditis elegans} PDB:
3k6b_A*
Length = 239
Score = 195 bits (495), Expect = 8e-59
Identities = 82/210 (39%), Positives = 119/210 (56%), Gaps = 2/210 (0%)
Query: 325 TPDPYFTHFEPKDEHHAFKEALQRLEEMHREKVTKVMKDWSDLEERYQDMRSKSPGVAED 384
+ DPYF +EH FK+A R++E HR+KV KVMK+W DLE RY + ++K P AE
Sbjct: 1 SQDPYFKIANWTNEHDDFKKAEMRMDEKHRKKVDKVMKEWGDLETRYNEQKAKDPKGAEK 60
Query: 385 FKQKMTLRFQQTVQSLEEEGNAEKHQLIVMHQQRVAARINQHKKDAMNCYIEALNDVS-- 442
FK +M RFQ+TV SLEEE + ++ +H++RV A +N+ K+DA + Y +AL
Sbjct: 61 FKSQMNARFQKTVSSLEEEHKRMRKEIEAVHEERVQAMLNEKKRDATHDYRQALATHVNK 120
Query: 443 LNTHKVQKCLQKLLRALHKDRHHTIAHYKHLLATNLDFAVKEKPMTLEHLVDIDHTINQS 502
N H V + L+ +RA KDR HT+ Y+HLL + A KP + L ID IN +
Sbjct: 121 PNKHSVLQSLKAYIRAEEKDRMHTLNRYRHLLKADSKEAAAYKPTVIHRLRYIDLRINGT 180
Query: 503 MTMLQRHPALAVKISELMQDYMQALRSKDE 532
+ ML+ P L + + Y + R +
Sbjct: 181 LAMLRDFPDLEKYVRPIAVTYWKDYRDEVS 210
>3ktm_A Amyloid beta A4 protein; protein structure, alzheimer disease,
amyloidosis, apoptosis, cell adhesion, copper, disease
mutation, disulfi endocytosis; 2.70A {Homo sapiens} PDB:
1owt_A 2fkl_A
Length = 191
Score = 191 bits (485), Expect = 5e-58
Identities = 61/133 (45%), Positives = 80/133 (60%), Gaps = 3/133 (2%)
Query: 1 IYPKHDITNIVESSNYVKITNWCKVGHSKCK-HTDWVKPYRCLEGPFQSDALLVPEHCVF 59
+YP+ ITN+VE++ V I NWCK G +CK H +V PYRCL G F SDALLVP+ C F
Sbjct: 60 VYPELQITNVVEANQPVTIQNWCKRGRKQCKTHPHFVIPYRCLVGEFVSDALLVPDKCKF 119
Query: 60 DHIHNQSKCWEYERWNQTAAQSCLERDLSLRSFAMLLPCGISLFAGVEFVCCPMKDKERE 119
H C + W+ A ++C E+ +L + MLLPCGI F GVEFVCCP+ + R+
Sbjct: 120 LHQERMDVCETHLHWHTVAKETCSEKSTNLHDYGMLLPCGIDKFRGVEFVCCPLAIEGRK 179
Query: 120 RFLEKQRKEVHKH 132
L + H H
Sbjct: 180 --LAAALEHHHHH 190
>3umh_A Amyloid beta A4 protein; metal binding site, metal binding, cell
surface, secretory P metal binding protein; 2.00A {Homo
sapiens} PDB: 3umi_A 3umk_A 1rw6_A 3nyl_A 3nyj_A 1tkn_A
Length = 211
Score = 186 bits (472), Expect = 9e-56
Identities = 62/209 (29%), Positives = 112/209 (53%), Gaps = 7/209 (3%)
Query: 324 PTPDPYFTHFEPKDEHHAFKEALQRLEEMHREKVTKVMKDWSDLEERYQDMRSKSPGVAE 383
D Y ++EH F++A +RLE HRE++++VM++W + E + +++
Sbjct: 5 DAVDKYLETPGDENEHAHFQKAKERLEAKHRERMSQVMREWEEAERQAKNLPKADK---- 60
Query: 384 DFKQKMTLRFQQTVQSLEEEGNAEKHQLIVMHQQRVAARINQHKKDAMNCYIEALNDVSL 443
+ + FQ+ V+SLE+E E+ QL+ H RV A +N ++ A+ YI AL V
Sbjct: 61 ---KAVIQHFQEKVESLEQEAANERQQLVETHMARVEAMLNDRRRLALENYITALQAVPP 117
Query: 444 NTHKVQKCLQKLLRALHKDRHHTIAHYKHLLATNLDFAVKEKPMTLEHLVDIDHTINQSM 503
V L+K +RA KDR HT+ H++H+ + A + + + HL I +NQS+
Sbjct: 118 RPRHVFNMLKKYVRAEQKDRQHTLKHFEHVRMVDPKKAAQIRSQVMTHLRVIYERMNQSL 177
Query: 504 TMLQRHPALAVKISELMQDYMQALRSKDE 532
++L PA+A +I + + + +Q ++ +
Sbjct: 178 SLLYNVPAVAEEIQDEVDELLQKEQNYSD 206
>3pmr_A Amyloid-like protein 1; heparin binding, cell adhesion; 2.11A {Homo
sapiens} PDB: 3q7l_A 3q7g_A 3qmk_A*
Length = 219
Score = 180 bits (457), Expect = 2e-53
Identities = 55/209 (26%), Positives = 104/209 (49%), Gaps = 7/209 (3%)
Query: 324 PTPDPYFTHFEPKDEHHAFKEALQRLEEMHREKVTKVMKDWSDLEERYQDMRSKSPGVAE 383
D YF EH F A LEE ++ +VM++W+ + + +++
Sbjct: 12 DGVDIYFGMPGEISEHEGFLRAKMDLEERRMRQINEVMREWAMADNQSKNLPKAD----- 66
Query: 384 DFKQKMTLRFQQTVQSLEEEGNAEKHQLIVMHQQRVAARINQHKKDAMNCYIEALNDVSL 443
+Q + FQ +Q+LEE+ + E+ +L+ H RV A IN ++ A+ ++ AL
Sbjct: 67 --RQALNEHFQSILQTLEEQVSGERQRLVETHATRVIALINDQRRAALEGFLAALQADPP 124
Query: 444 NTHKVQKCLQKLLRALHKDRHHTIAHYKHLLATNLDFAVKEKPMTLEHLVDIDHTINQSM 503
+V L++ LRA K++ HT+ HY+H+ A + + A + + HL I+ +NQS+
Sbjct: 125 QAERVLLALRRYLRAEQKEQRHTLRHYQHVAAVDPEKAQQMRFQVHTHLQVIEERVNQSL 184
Query: 504 TMLQRHPALAVKISELMQDYMQALRSKDE 532
+L ++P LA ++ +Q+ + +
Sbjct: 185 GLLDQNPHLAQELRPQIQELLHSEHLGPS 213
>2fma_A Amyloid beta A4 protein precursor; alpha-beta two-layered sandwich,
metal binding protein; 0.85A {Homo sapiens} PDB: 2fjz_A
2fk2_A 2fk3_A 2fk1_A
Length = 59
Score = 108 bits (271), Expect = 5e-29
Identities = 26/59 (44%), Positives = 34/59 (57%)
Query: 55 EHCVFDHIHNQSKCWEYERWNQTAAQSCLERDLSLRSFAMLLPCGISLFAGVEFVCCPM 113
E C F H C + W+ A ++C E+ +L + MLLPCGI F GVEFVCCP+
Sbjct: 1 EACKFLHQERMDVCETHLHWHTVAKETCSEKSTNLHDYGMLLPCGIDKFRGVEFVCCPL 59
>2lp1_A C99; alzheimer'S D membrane protein, transmembrane Pro; NMR {Homo
sapiens}
Length = 122
Score = 93.4 bits (231), Expect = 6e-23
Identities = 32/109 (29%), Positives = 55/109 (50%), Gaps = 12/109 (11%)
Query: 180 VQPAYAMSHDLSIGEPSYLRHEVRPRGDSKGVYVTVVFAGLAVMAAVFIAMTVLKRRSAR 239
+ + +++ + + +V +KG + ++ G+ + + I + +LK++
Sbjct: 3 AEFRHDSGYEVHHQKLVFFAEDVG---SNKGAIIGLMVGGVVIATVIVITLVMLKKKQYT 59
Query: 240 SPQNLCNVFFYFQGFIEVDQAATPEERHVANMQINGYENPTYKYFEIKD 288
S G +EVD A TPEERH++ MQ NGYENPTYK+FE
Sbjct: 60 SIH---------HGVVEVDAAVTPEERHLSKMQQNGYENPTYKFFEQMQ 99
>1mwp_A Amyloid A4 protein; heparin binding, sugar binding protein; 1.80A
{Homo sapiens} SCOP: d.170.2.1
Length = 96
Score = 77.4 bits (190), Expect = 1e-17
Identities = 25/47 (53%), Positives = 32/47 (68%), Gaps = 1/47 (2%)
Query: 1 IYPKHDITNIVESSNYVKITNWCKVGHSKCK-HTDWVKPYRCLEGPF 46
+YP+ ITN+VE++ V I NWCK G +CK H +V PYRCL G F
Sbjct: 49 VYPELQITNVVEANQPVTIQNWCKRGRKQCKTHPHFVIPYRCLVGEF 95
>3dxe_B Amyloid beta A4 protein; alzheimer'S disease, APP, AICD, Fe65, PTB
domain, alternative splicing, polymorphism, alzheimer
disease, apoptosis; 2.00A {Homo sapiens} PDB: 3dxc_B
3dxd_B 2roz_A
Length = 35
Score = 55.6 bits (133), Expect = 1e-10
Identities = 20/29 (68%), Positives = 24/29 (82%)
Query: 257 VDQAATPEERHVANMQINGYENPTYKYFE 285
+D A PEERH++ MQ NGYENPTYK+FE
Sbjct: 3 MDAAVAPEERHLSKMQQNGYENPTYKFFE 31
>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 = 58.5 bits (141), Expect = 4e-09
Identities = 56/316 (17%), Positives = 100/316 (31%), Gaps = 80/316 (25%)
Query: 304 SSTTTPTSTATTKSHATTR----VPTPDPYFTHFEPKDEHHAFKEALQRLEEMHREKVTK 359
+ +T P T SH + VPT +F + +++ + E T
Sbjct: 3 AYSTRPL----TLSHGSLEHVLLVPT-ASFFIASQLQEQFNKILPEPTEGFAADDEPTTP 57
Query: 360 VMKDWSDLEERYQD--MRSKSPGVAEDFKQ--KMTLR-FQQTVQSLEEEGNAEKHQLIVM 414
+L ++ P F Q + L F+ LE GN + H L
Sbjct: 58 A-----ELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCY--LE--GN-DIHALAAK 107
Query: 415 HQQRVAARINQHKKDAMNCYIEALNDVSLNTHKVQKCLQKLLRALHKDRHHTIA------ 468
Q + + K+ + YI A K L RA+ + +A
Sbjct: 108 LLQENDTTLVK-TKELIKNYITARIMAKRPFDKKSN--SALFRAVGEGNAQLVAIFGGQG 164
Query: 469 --------------HYKHLLATNLDFAVKEKPMTLEHLV----DIDHTINQSMTMLQ--R 508
Y L+ + F+ + TL L+ D + Q + +L+
Sbjct: 165 NTDDYFEELRDLYQTYHVLVGDLIKFSAE----TLSELIRTTLDAEKVFTQGLNILEWLE 220
Query: 509 HP------------ALAVKISELMQ--DYMQALRSKDETPGSLLSLTREA---EEAILDK 551
+P ++ + ++Q Y+ + TPG L S + A + ++
Sbjct: 221 NPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLV-- 278
Query: 552 YKAQVIAMQ---EDFY 564
A IA E F+
Sbjct: 279 -TAVAIAETDSWESFF 293
Score = 48.9 bits (116), Expect = 4e-06
Identities = 69/530 (13%), Positives = 129/530 (24%), Gaps = 189/530 (35%)
Query: 159 STPIPPGVDAHPPYSSQR----HDTVQPAYAMSHDLSIGEPS-----------YLRHEVR 203
+P + S + +P + D EP+ Y+ V
Sbjct: 19 VLLVPT--ASFFIASQLQEQFNKILPEPTEGFAAD---DEPTTPAELVGKFLGYVSSLVE 73
Query: 204 PRGDSKGVYVTVVFAGLAVMAAVF--------IAMTVLKRRSARSPQNLCNVFFYFQGFI 255
P G + V+ L + +A +L+ + + Y I
Sbjct: 74 P--SKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARI 131
Query: 256 EVDQAATPEE-----RHVANMQINGYE------NPTYKYF-EIKD-YDSYENIVSPSSGP 302
+ + R V N YF E++D Y +Y +V
Sbjct: 132 MAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTD-DYFEELRDLYQTYHVLVGDLIKF 190
Query: 303 ASSTTTPTSTATTKSHA------------TTRVPTPD-PY---------------FTHFE 334
++ T + T + TPD Y H+
Sbjct: 191 SAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYV 250
Query: 335 ---------PKDEHHAFKEALQRLEEMHREKVTKVM----KDWSDLEERYQDMRSKSPGV 381
P + K A + + VT V W +
Sbjct: 251 VTAKLLGFTPGELRSYLKGATGHSQGL----VTAVAIAETDSWESFFVSVRKA------- 299
Query: 382 AEDFKQKMT------LRFQQT----------VQSLEEEGNAEK-HQLIV--MHQQRVAAR 422
+T +R + ++ E L + + Q++V
Sbjct: 300 -------ITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDY 352
Query: 423 INQHKKDAMNCYIEALNDVSLNTHKVQKCLQKLLRALHKDRHHTIAHYKHLL--ATNLDF 480
+N+ N+H L + I+ L+ A N
Sbjct: 353 VNK-----------------TNSH------------LPAGKQVEIS----LVNGAKN--L 377
Query: 481 AVKEKPMTLEHL------VDIDHTINQSMT-MLQRHPA-----LAVKI---SELMQDY-- 523
V P +L L ++QS +R L V S L+
Sbjct: 378 VVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASD 437
Query: 524 --MQALRSKDET-PGSLLSLT----------REAEEAILDKYKAQVIAMQ 560
+ L + + + + R +I ++ +I +
Sbjct: 438 LINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLP 487
Score = 47.7 bits (113), Expect = 1e-05
Identities = 67/440 (15%), Positives = 129/440 (29%), Gaps = 153/440 (34%)
Query: 46 FQSDALLVPE-HCVFDHI--HNQSKCWEYERWNQT--AAQSCLERDLSLRSFAMLLPC-- 98
F++ L + H + + N + + + + A+ +R +S + L
Sbjct: 91 FENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVG 150
Query: 99 -G----ISLFAG---VE--FVCCPMKDKE-RERFLEKQRKEVHKHEREELREEKAR---- 143
G +++F G + F +E R+ + + + +L + A
Sbjct: 151 EGNAQLVAIFGGQGNTDDYF-------EELRDLY------QTYHVLVGDLIKFSAETLSE 197
Query: 144 -VKAAAEGRTYEPTG---------PSTPIPPGVD--AHPPYSSQRHDTVQPA---YAMSH 188
++ + G PS P D P S P ++H
Sbjct: 198 LIRTTLDAEKVFTQGLNILEWLENPSNT--PDKDYLLSIPIS-------CPLIGVIQLAH 248
Query: 189 DLSIGEPSYLRH-EVRPRGDSKGVYVTVVFAGLAVMAAVFIAMT------------VLK- 234
+ + E+R KG T G ++ AV IA T +
Sbjct: 249 YVVTAKLLGFTPGELRSY--LKGA--TGHSQG--LVTAVAIAETDSWESFFVSVRKAITV 302
Query: 235 ------------RRSARSPQNLCNVFFYFQGFIEVDQ-AATP-----------EERHVAN 270
++ P L + +E ++ +P + +V
Sbjct: 303 LFFIGVRCYEAYPNTSLPPSIL-------EDSLENNEGVPSPMLSISNLTQEQVQDYVN- 354
Query: 271 MQINGYENPTYKYFEIKDYDSYENIVSPSSGPASS----------TTTPTSTATTKSHAT 320
+ N + P K EI + +N+V SGP S P+ ++ +
Sbjct: 355 -KTNSHL-PAGKQVEISLVNGAKNLV--VSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFS 410
Query: 321 TRVPTPD--------PYFTHF-EPKDEHHAFKEALQRLEEMHREKVTKVMK-------DW 364
R P+ +H P A + L + + K ++ D
Sbjct: 411 ERKLKFSNRFLPVASPFHSHLLVP-----ASDLINKDLVKNNVSFNAKDIQIPVYDTFDG 465
Query: 365 SDLEERYQDMRSKSPGVAED 384
SDL R S ++E
Sbjct: 466 SDL-------RVLSGSISER 478
Score = 30.8 bits (69), Expect = 1.8
Identities = 24/148 (16%), Positives = 45/148 (30%), Gaps = 32/148 (21%)
Query: 425 QHKKDAMNCYIEALNDVSLNTHKVQKCLQKLLRALHKDRHHTIAHYKHLLATNLDFA--- 481
Q + M+ Y T K + + RA D H F+
Sbjct: 1627 QEQGMGMDLY---------KTSKAAQDVWN--RA---DNH---------FKDTYGFSILD 1663
Query: 482 -VKEKPMTLEHLVD--IDHTINQS-MTMLQRHPALA-VKISELMQDYMQALRSKD-ETPG 535
V P+ L I ++ M+ +K ++ ++ + S +
Sbjct: 1664 IVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEK 1723
Query: 536 SLLSLTREAEEAILDKYKAQVIAMQEDF 563
LLS T+ + A+ KA ++
Sbjct: 1724 GLLSATQFTQPALTLMEKAAFEDLKSKG 1751
>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 = 50.6 bits (120), Expect = 1e-06
Identities = 69/509 (13%), Positives = 131/509 (25%), Gaps = 164/509 (32%)
Query: 115 DKERERFL-----EKQRKEVHKHEREELREEKARVKAAAEGRTYEPTGPSTPIPPGVDAH 169
L KQ + V K E LR + + + +P+ +
Sbjct: 60 AVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRM-------- 111
Query: 170 PPYSSQR---HDTVQPAYAMSHDLSIGEP-SYLRH---EVRPRGDSKGVYVTVVFAGLAV 222
Y QR ++ Q +++S +P LR E+RP V + G
Sbjct: 112 --YIEQRDRLYNDNQVF--AKYNVSRLQPYLKLRQALLELRP-----AKNVLID--G--- 157
Query: 223 MAAVFIAMTVLKRRSARSPQNLCNVFFYFQGF-IEVDQAATPEERHVANMQINGYENPTY 281
+ T + S + C F+ F + + +PE V M
Sbjct: 158 VLG--SGKTWVALDVCLSYKVQCK--MDFKIFWLNLKNCNSPET--VLEMLQKLLYQIDP 211
Query: 282 KYFEIKDYDSYENIVSPSSGPASSTTTPTSTATTKSHATTRVPTPDPYFTHFEPKDEHHA 341
+ D+ S K H+
Sbjct: 212 NWTSRSDHSS------------------------------------------NIKLRIHS 229
Query: 342 FKEALQRLEEMHREKVTK---VMKD-WSDLEERYQDMRSKSPGVAEDFKQK----MTLRF 393
+ L+RL + + V+ + + F +T RF
Sbjct: 230 IQAELRRL--LKSKPYENCLLVLLNVQN-------------AKAWNAFNLSCKILLTTRF 274
Query: 394 QQTVQSLEEEGNAEKHQLIVMHQQRVAARINQHKKDAMNCYIEALN----DVSLNTHKVQ 449
+Q L H + H + + + ++ L+ D+
Sbjct: 275 KQVTDFLS--AATTTHISLDHHSMTL------TPDEVKSLLLKYLDCRPQDLPREVLTTN 326
Query: 450 KCLQKLLRALHKDRHHTIAHYKHLLATNLDFAVKEKPMTLEHLVDIDHTINQSMTMLQRH 509
++ +D T ++KH+ L ++ +L L + +
Sbjct: 327 PRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIE---SSLNVL--------EPAEYRKMF 375
Query: 510 PALA-----VKI-------------SELMQDYMQAL--------RSKDET---PGSLLSL 540
L+ I + + L + K+ T P L L
Sbjct: 376 DRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLEL 435
Query: 541 TREAEE------AILDKYKAQVIAMQEDF 563
+ E +I+D Y +D
Sbjct: 436 KVKLENEYALHRSIVDHYNIPKTFDSDDL 464
Score = 50.2 bits (119), Expect = 2e-06
Identities = 44/258 (17%), Positives = 78/258 (30%), Gaps = 55/258 (21%)
Query: 333 FEPKDEHHAFKEALQRLEEMHREKVTKVMKDWSDLE------ERYQDMRSKSPGVAEDFK 386
FE + + +K+ L E+ + KD D+ E + V+ +
Sbjct: 9 FETGEHQYQYKDILSVFEDAFVDNFD--CKDVQDMPKSILSKEEIDHIIMSKDAVSGTLR 66
Query: 387 QKMTLRFQQ--TVQSLEEEGNAEKHQLIVMHQQRVAARINQHKKDAMNCYIEAL----ND 440
TL +Q VQ EE ++ ++ + Q YIE ND
Sbjct: 67 LFWTLLSKQEEMVQKFVEEVLRINYKFLM---SPIKTEQRQ-PSMMTRMYIEQRDRLYND 122
Query: 441 VSLNT-HKV--QKCLQKLLRALHKDRHHT-IAHY------KHLLA----------TNLDF 480
+ + V + KL +AL + R + K +A +DF
Sbjct: 123 NQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDF 182
Query: 481 AV--------KEKPMTLEHLVDIDHTINQSMTMLQRHPALAVKISELMQDYMQALRSKDE 532
+ LE L + + I+ + T H + +Q ++ L
Sbjct: 183 KIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKP 242
Query: 533 TPGSLLSLTREAEEAILD 550
LL +L
Sbjct: 243 YENCLL---------VLL 251
Score = 31.0 bits (69), Expect = 1.5
Identities = 67/490 (13%), Positives = 134/490 (27%), Gaps = 151/490 (30%)
Query: 5 HDITNIVESSNYVKITNWCKVGHSKCK---HTDWVKPY--RCLEGPFQSDALLVPEHCVF 59
+ +++ Y NW ++ R L+ + LLV
Sbjct: 196 ETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLV-----L 250
Query: 60 DHIHNQSKCWEYERWNQTAAQSCLERDLSLRSFAMLLPCGI---SLFAGV-EFVCCPMKD 115
++ + WN A L C I + F V +F+
Sbjct: 251 LNV------QNAKAWN-----------------AFNLSCKILLTTRFKQVTDFL---SAA 284
Query: 116 KERERFLEKQRKEVHKHEREELREEKARVKAA---AEGRTYEPTGPSTPIPPGVDAHP-- 170
L+ + E + L + + E T P S I +
Sbjct: 285 TTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSI-IAESIRDGLAT 343
Query: 171 --PYSSQRHDTVQPAYAMSHDLSIGEPSYLRH-----EVRPRGDSKGVYVTV-VFAGL-- 220
+ D + S L++ EP+ R V P ++ + + +
Sbjct: 344 WDNWKHVNCDKLTTIIESS--LNVLEPAEYRKMFDRLSVFP----PSAHIPTILLSLIWF 397
Query: 221 -------AVMAAVFIAMTVLKRRSARSPQNLCNVFFYFQGFIEVDQAATPEERHVANMQI 273
V+ ++++++ S ++ +++ + +E + A H +
Sbjct: 398 DVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYAL-----H--RSIV 450
Query: 274 NGYENPTYKYFEIKDYDSYENIVSPSSGPASSTTTPTSTATTKSHATTRVPTPDPYFTHF 333
+ Y P K +DS + + P P D YF
Sbjct: 451 DHYNIP-------KTFDSDD--LIP-------------------------PYLDQYFYSH 476
Query: 334 EPKDEHHAFKEALQRLEEMHREKVTKVMKDWSDLEERYQDMRSKSPGVAEDFKQKMTLRF 393
HH L+ +E R + + D RF
Sbjct: 477 IG---HH-----LKNIEHPER---------MTLFRMVFLD-----------------FRF 502
Query: 394 -QQTVQSLEEEGNAEKHQLIVMHQQRVAARINQHKKDAMNCYIEALNDVSLNTHKVQKCL 452
+Q ++ NA L + Q + + D Y +N + + K
Sbjct: 503 LEQKIRHDSTAWNASGSILNTLQQLK---FYKPYICDNDPKYERLVNAI---LDFLPKIE 556
Query: 453 QKLLRALHKD 462
+ L+ + + D
Sbjct: 557 ENLICSKYTD 566
>2yt0_A Amyloid beta A4 protein and amyloid beta A4 precursor
protein-binding family B member...; chimera, Fe65L, PID
domain, amyloid precursor protein; NMR {Mus musculus}
PDB: 2yt1_A
Length = 176
Score = 44.3 bits (104), Expect = 2e-05
Identities = 21/32 (65%), Positives = 24/32 (75%)
Query: 258 DQAATPEERHVANMQINGYENPTYKYFEIKDY 289
D A TPEERH++ MQ NGYENPTYK+FE
Sbjct: 8 DAAVTPEERHLSKMQQNGYENPTYKFFEQMQN 39
>2ysz_A Amyloid beta A4 precursor protein-binding family B member 2 and
amyloid beta A4 protein...; chimera, Fe65L, PID domain,
amyloid precursor protein; NMR {Mus musculus}
Length = 185
Score = 42.5 bits (99), Expect = 1e-04
Identities = 26/68 (38%), Positives = 33/68 (48%), Gaps = 8/68 (11%)
Query: 220 LAVMAAVFIAMTVLKRRSARSPQNLCNVFFYFQGFIEVDQAATPEERHVANMQINGYENP 279
AV AA + ++ R + D A TPEERH++ MQ NGYENP
Sbjct: 124 EAVQAACSGPSSGIEGRGSSGSSG--------SSGSSGDAAVTPEERHLSKMQQNGYENP 175
Query: 280 TYKYFEIK 287
TYK+FE
Sbjct: 176 TYKFFEQM 183
>1u2m_A Histone-like protein HLP-1; coiled coil, chaperone; 2.30A
{Escherichia coli} SCOP: f.48.1.1 PDB: 1sg2_A
Length = 143
Score = 36.4 bits (84), Expect = 0.006
Identities = 12/93 (12%), Positives = 33/93 (35%), Gaps = 4/93 (4%)
Query: 337 DEHHAFKEALQRLEEMHREKVTKVMKDWSDLEERYQDMRSKSPGVAEDFKQK----MTLR 392
+ LE + + +++ + +DL+ + + ++S G +K
Sbjct: 16 QQVAQKTGVSNTLENEFKGRASELQRMETDLQAKMKKLQSMKAGSDRTKLEKDVMAQRQT 75
Query: 393 FQQTVQSLEEEGNAEKHQLIVMHQQRVAARINQ 425
F Q Q+ E++ ++ R+ +
Sbjct: 76 FAQKAQAFEQDRARRSNEERGKLVTRIQTAVKS 108
>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 = 34.5 bits (78), Expect = 0.036
Identities = 7/36 (19%), Positives = 17/36 (47%), Gaps = 7/36 (19%)
Query: 133 EREELREEKARVKAAAEGRTYEP-TGPSTPIPPGVD 167
E++ L++ +A +K Y + P+ I ++
Sbjct: 18 EKQALKKLQASLK------LYADDSAPALAIKATME 47
Score = 30.3 bits (67), Expect = 0.82
Identities = 4/19 (21%), Positives = 8/19 (42%)
Query: 285 EIKDYDSYENIVSPSSGPA 303
+K + + + S PA
Sbjct: 21 ALKKLQASLKLYADDSAPA 39
Score = 28.8 bits (63), Expect = 2.7
Identities = 8/26 (30%), Positives = 12/26 (46%), Gaps = 9/26 (34%)
Query: 501 QSMTMLQRH---------PALAVKIS 517
Q++ LQ PALA+K +
Sbjct: 20 QALKKLQASLKLYADDSAPALAIKAT 45
Score = 27.2 bits (59), Expect = 9.7
Identities = 9/40 (22%), Positives = 17/40 (42%), Gaps = 17/40 (42%)
Query: 343 KEALQRLEEMHREKVTKVMKDWSDLEERYQDMRSKSPGVA 382
K+AL++L+ + L + Y D +P +A
Sbjct: 19 KQALKKLQ--------------ASL-KLYAD--DSAPALA 41
>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 = 0.045
Identities = 7/43 (16%), Positives = 20/43 (46%), Gaps = 7/43 (16%)
Query: 114 KD----KERERFLEKQRKEV---HKHEREELREEKARVKAAAE 149
D + + EK +K++ ++ + E++ + K + A +
Sbjct: 101 LDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADK 143
Score = 31.7 bits (71), Expect = 0.40
Identities = 9/66 (13%), Positives = 22/66 (33%), Gaps = 11/66 (16%)
Query: 342 FKEALQRLEEMHREKVTKVM----KDWSDLEERYQDMRSKSPGVAEDFKQKMTLRFQQTV 397
++ LQ L+ + + KD + +R + K+ K + +
Sbjct: 94 QRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKN-------KINNRIADKAFY 146
Query: 398 QSLEEE 403
Q + +
Sbjct: 147 QQPDAD 152
Score = 30.1 bits (67), Expect = 1.5
Identities = 7/30 (23%), Positives = 13/30 (43%), Gaps = 2/30 (6%)
Query: 116 KERERFLE--KQRKEVHKHEREELREEKAR 143
K RE + ++ K +E RE+ +
Sbjct: 89 KWREEQRKRLQELDAASKVMEQEWREKAKK 118
Score = 29.7 bits (66), Expect = 1.5
Identities = 8/28 (28%), Positives = 15/28 (53%), Gaps = 1/28 (3%)
Query: 123 EKQRKEV-HKHEREELREEKARVKAAAE 149
E+QRK + ++ E++ R KA +
Sbjct: 92 EEQRKRLQELDAASKVMEQEWREKAKKD 119
Score = 29.0 bits (64), Expect = 3.2
Identities = 7/31 (22%), Positives = 17/31 (54%)
Query: 115 DKERERFLEKQRKEVHKHEREELREEKARVK 145
K+ E + ++Q ++V K++ +KA +
Sbjct: 117 KKDLEEWNQRQSEQVEKNKINNRIADKAFYQ 147
Score = 27.8 bits (61), Expect = 6.6
Identities = 6/45 (13%), Positives = 17/45 (37%), Gaps = 7/45 (15%)
Query: 116 KERERFLEKQRKEVHKHEREEL------REEKARVKAAAEGRTYE 154
+E + + +E + +++L + E+ K R +
Sbjct: 99 QELDAASKVMEQEWREKAKKDLEEWNQRQSEQVE-KNKINNRIAD 142
>2v0o_A FCHO2, FCH domain only protein 2; lipid-binding protein, EFC
domain, vesicle trafficking, membrane curvature,
endocytosis, exocytosis, F-BAR domain; 2.30A {Homo
sapiens}
Length = 276
Score = 33.9 bits (77), Expect = 0.12
Identities = 24/143 (16%), Positives = 59/143 (41%), Gaps = 5/143 (3%)
Query: 326 PDPYFT-HFEPKDEHHAFKEALQRLEEMHR--EKVTKVMKDWSDLEERYQDMRSKSPGVA 382
P YF +F + + F ++ +++ +++ + +EE Y +K A
Sbjct: 4 PMAYFVENFWGEK-NSGFDVLYHNMKHGQISTKELADFVRERATIEEAYSRSMTKLAKSA 62
Query: 383 EDFKQKMTLRFQQTVQSLEEEGNAEKHQLIVMHQQRVAARINQHKKDAMNCYIEALNDVS 442
++ Q T V E A H +V Q + + ++ ++ + + + +V+
Sbjct: 63 SNYSQLGTFAPVWDVFKTSTEKLANCHLDLVRKLQELIKEVQKYGEEQVKSHKKTKEEVA 122
Query: 443 LNTHKVQKCLQKLLRALHKDRHH 465
T + + +Q + +AL K + +
Sbjct: 123 -GTLEAVQTIQSITQALQKSKEN 144
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 32.4 bits (73), Expect = 0.29
Identities = 17/105 (16%), Positives = 34/105 (32%), Gaps = 15/105 (14%)
Query: 255 IEVDQAATPEERHVANMQINGYENPTYKYFEIKDYDSYENI--VSPSSGPASSTTTPTST 312
+ P R V+ ++++ + K+ I Y+ +ENI P + S
Sbjct: 135 SDDKAKVPPLIRIVSGLELSDTKQKGKKFLVIA-YEPFENIAIELPPNEILFSENNDMDN 193
Query: 313 ATTKSHATTRVPTPDPYFTHFEPKDEHH-----AFKEALQRLEEM 352
V + T ++ FK+A Q ++
Sbjct: 194 ------NNDGVDELNKKCTFWDA-ISKLYYVQFFFKQAEQEQADV 231
>3ira_A Conserved protein; methanosarcina mazei,structural genomics, MCSG,
protein structure initiative, midwest center for STRU
genomics; 2.10A {Methanosarcina mazei}
Length = 173
Score = 30.8 bits (70), Expect = 0.70
Identities = 13/62 (20%), Positives = 27/62 (43%), Gaps = 6/62 (9%)
Query: 325 TPD--PYF--THFEPKDEHH--AFKEALQRLEEMHREKVTKVMKDWSDLEERYQDMRSKS 378
TP P+F T+ + E + R++E+ ++ +V+ + Q+M +S
Sbjct: 112 TPGKKPFFAGTYIPKNTRFNQIGMLELVPRIKEIWEQQHEEVLDSAEKITSTIQEMIKES 171
Query: 379 PG 380
G
Sbjct: 172 SG 173
>3ghp_A Cellulosomal scaffoldin adaptor protein B; linker segments, beta
barrel, alpha helix, beta flaps, structural protein;
2.49A {Acetivibrio cellulolyticus}
Length = 227
Score = 29.1 bits (64), Expect = 3.7
Identities = 15/47 (31%), Positives = 21/47 (44%), Gaps = 3/47 (6%)
Query: 297 SPSSGPA---SSTTTPTSTATTKSHATTRVPTPDPYFTHFEPKDEHH 340
+P++ P S+ T T T T + TT +PT P E HH
Sbjct: 181 TPTTKPTAFASTMPTVTLTPTPTATTTTTIPTAVPTTESLEHHHHHH 227
>3n5m_A Adenosylmethionine-8-amino-7-oxononanoate aminotr;
aminotransferase, csgid; 2.05A {Bacillus anthracis}
Length = 452
Score = 29.1 bits (66), Expect = 4.0
Identities = 11/39 (28%), Positives = 16/39 (41%), Gaps = 5/39 (12%)
Query: 99 GISLFAGVEFVCCPMKDKE-RERFLEKQRKEVHKHEREE 136
G L G+E V DKE +E + V +E+
Sbjct: 373 GKGLLVGIELV----NDKETKEPIDNDKIASVVNACKEK 407
>1hci_A Alpha-actinin 2; triple-helix coiled coil, contractIle protein,
muscle, Z- LINE, actin-binding protein; 2.8A {Homo
sapiens} SCOP: a.7.1.1 a.7.1.1 a.7.1.1 a.7.1.1
Length = 476
Score = 28.7 bits (63), Expect = 6.5
Identities = 14/123 (11%), Positives = 50/123 (40%), Gaps = 1/123 (0%)
Query: 340 HAFKEALQRLEEMHREKVTKVMKDWSDLEERYQDMRSKSPGVAEDFKQKMTLRFQQTVQS 399
++ L+ ++++H E + + +E +D++ + + Q + +Q +
Sbjct: 235 ERMEKLLETIDQLHLEFAKRAAPFNNWMEGAMEDLQDMFIVHSIEEIQSLITAHEQFKAT 294
Query: 400 LEEEGNAEKHQLIVMHQQRVAARINQHKKDAMNCYIEA-LNDVSLNTHKVQKCLQKLLRA 458
L E + + + ++ + + + N Y ++++ KV++ + ++
Sbjct: 295 LPEADGERQSIMAIQNEVEKVIQSYNIRISSSNPYSTVTMDELRTKWDKVKQLVPIRDQS 354
Query: 459 LHK 461
L +
Sbjct: 355 LQE 357
>2dgc_A Protein (GCN4); basic domain, leucine zipper, DNA binding,
eukaryotic regulatory protein, transcription/DNA
complex; HET: DNA; 2.20A {Saccharomyces cerevisiae}
SCOP: h.1.3.1 PDB: 1dgc_A* 1ld4_E 1ysa_C* 3p8m_D
Length = 63
Score = 25.9 bits (57), Expect = 7.2
Identities = 10/39 (25%), Positives = 18/39 (46%), Gaps = 1/39 (2%)
Query: 113 MKDKERERFLEKQRKEVHKHEREELREEKARVKAAAEGR 151
+ +R + LE + +E+ + L E AR+K R
Sbjct: 26 ARKLQRMKQLEDKVEEL-LSKNYHLENEVARLKKLVGER 63
>2xd3_A MALX, maltose/maltodextrin-binding protein; solute-binding protein,
sugar binding protein, virulence, alpha-glucan, sugar
transport; HET: GLC; 2.00A {Streptococcus pneumoniae}
PDB: 2xd2_A*
Length = 416
Score = 28.2 bits (63), Expect = 7.5
Identities = 11/76 (14%), Positives = 20/76 (26%)
Query: 297 SPSSGPASSTTTPTSTATTKSHATTRVPTPDPYFTHFEPKDEHHAFKEALQRLEEMHREK 356
S SS P + + T + + +E + E+ K
Sbjct: 4 SHHHHHHSSGLVPRGSHMASDKPADSGSSEVKELTVYVDEGYKSYIEEVAKAYEKEAGVK 63
Query: 357 VTKVMKDWSDLEERYQ 372
VT D ++
Sbjct: 64 VTLKTGDALGGLDKLS 79
>1u5p_A Spectrin alpha chain, brain; alpha spectrin, two repeats of
spectrin, alpha-helical linker region, 3-helix coiled
coil, structural protein; 2.00A {Gallus gallus} SCOP:
a.7.1.1 a.7.1.1
Length = 216
Score = 28.0 bits (62), Expect = 8.1
Identities = 18/147 (12%), Positives = 37/147 (25%), Gaps = 18/147 (12%)
Query: 336 KDEHHAFKEALQRLEEMHREKVTKVMKDWSDLEERYQDMRSKSPGVAEDFKQK--MTLRF 393
+D L ++V + R+Q ++S A + K + R
Sbjct: 56 EDRLKDLNSQADSLMTSSAFDTSQVKDKRETINGRFQRIKSM----AAARRAKLNESHRL 111
Query: 394 QQTVQSLEEEGN-------AEKHQLIVMHQQRVAARINQHKKDAMNCYIEALNDVSLNTH 446
Q + +++E + + V +HK+ L
Sbjct: 112 HQFFRDMDDEESWIKEKKLLVSSEDYGRDLTGVQNLRKKHKR-----LEAELAAHEPAIQ 166
Query: 447 KVQKCLQKLLRALHKDRHHTIAHYKHL 473
V +KL +
Sbjct: 167 GVLDTGKKLSDDNTIGKEEIQQRLAQF 193
>2zog_A Cytosolic non-specific dipeptidase; metallopeptidase,
protein-inhibitor complex, CNDP2, CNDP DIP 2, bestatin,
L-carnosine, carnosinase, Zn; HET: BES; 1.70A {Mus
musculus} PDB: 2zof_A*
Length = 479
Score = 28.1 bits (63), Expect = 9.3
Identities = 13/58 (22%), Positives = 21/58 (36%), Gaps = 9/58 (15%)
Query: 134 REELREEKARVKAAAEGRTYEPTGPSTPIPPGVDAHPPYSSQR--------HDTVQPA 183
+++ V+ G+ P G P+PP + Q+ D VQPA
Sbjct: 53 AADVQRLGGSVELVDIGKQKLPDGSEIPLPPILLGKLGSDPQKKTVCIYGHLD-VQPA 109
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
0.318 0.131 0.391
Gapped
Lambda K H
0.267 0.0496 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,711,970
Number of extensions: 527801
Number of successful extensions: 1688
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1661
Number of HSP's successfully gapped: 74
Length of query: 564
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 465
Effective length of database: 3,937,614
Effective search space: 1830990510
Effective search space used: 1830990510
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: 60 (27.4 bits)