RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 047772
(498 letters)
>2l0e_A Sodium/hydrogen exchanger 1; transmembrane helix, membrane protein,
NHE1; NMR {Homo sapiens}
Length = 33
Score = 40.0 bits (93), Expect = 3e-05
Identities = 13/24 (54%), Positives = 21/24 (87%)
Query: 157 ECLMFGALISATDPVTVLSIFQEL 180
+ L+FG++ISA DPV VL++F+E+
Sbjct: 5 DNLLFGSIISAVDPVAVLAVFEEI 28
>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 = 43.1 bits (101), Expect = 2e-04
Identities = 89/559 (15%), Positives = 157/559 (28%), Gaps = 227/559 (40%)
Query: 36 LVLSFVLGHVLRRHKFYYLPEASASLLIGL---------------IVGALANISNTETN- 79
LV F LG+V + + + L + L + L ++T
Sbjct: 60 LVGKF-LGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVK 118
Query: 80 ----ISAYL----LLDFEFYLQHFSFLDSFRHTQSGFSLSPKPFFSNFGAIVTFAIFGTF 131
I Y+ + F + S L FR G AIFG
Sbjct: 119 TKELIKNYITARIMAKRPFDKKSNSAL--FRAVGEG-------------NAQLVAIFG-- 161
Query: 132 LASMVTG---ILVYLGGV--MFLMYRLPFVECLMFGA----------------------- 163
G Y + ++ Y V L+ +
Sbjct: 162 ------GQGNTDDYFEELRDLYQTYH-VLVGDLIKFSAETLSELIRTTLDAEKVFTQGLN 214
Query: 164 ----------------LISATDPVTV--LSIFQ---------ELGTDM-NLYALVFGESV 195
L+S P++ + + Q LG L + + G +
Sbjct: 215 ILEWLENPSNTPDKDYLLSI--PISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATG 272
Query: 196 LNDAMAISLYRTMSLVRSHASSGQNFFMVIVRFLE--TFVGSILQNLECCLFVLFPYF-- 251
+ + ++ + S ++FF+ + + + F+G ++ E +P
Sbjct: 273 HSQGLV------TAVAIAETDSWESFFVSVRKAITVLFFIG--VRCYEA-----YPNTSL 319
Query: 252 ----------------SYMLA-EGLGLSGIVSILFTGIVMKRYTFSNLSENSQRFVSAFF 294
S ML+ L + + T S+L Q +S
Sbjct: 320 PPSILEDSLENNEGVPSPMLSISNLTQEQVQDYV-------NKTNSHLPAGKQVEIS--- 369
Query: 295 HLISSLAETFVF------IYMGFDIAMEKHSW------SHLGF----IFFSILFI-IVAR 337
L++ A+ V +Y G ++ + K S + F + FS F+ + +
Sbjct: 370 -LVNG-AKNLVVSGPPQSLY-GLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASP 426
Query: 338 AANVFSCAYLVNLARPAHRQIP--LKHQQALW---------YS---G--LRG-------A 374
F L PA I L + Y G LR
Sbjct: 427 ----FHSHLL----VPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISER 478
Query: 375 MAFALALQSVH-DLPEGHGQTIFSATTVIV----------VLTVLLIGGSTGTMLEALQV 423
+ + V + T F AT ++ VLT G TG ++V
Sbjct: 479 IVDCIIRLPVKWET-----TTQFKATHILDFGPGGASGLGVLTHRNKDG-TG-----VRV 527
Query: 424 VGDAHDGHLGENFEGNNGY 442
+ A G L N + + G+
Sbjct: 528 I-VA--GTLDINPDDDYGF 543
Score = 42.0 bits (98), Expect = 5e-04
Identities = 50/289 (17%), Positives = 84/289 (29%), Gaps = 97/289 (33%)
Query: 178 QELGTDMNLYA------LVF--GESVLNDAMAISLYRTMSLVRSHASSGQNFFMVIVRFL 229
QE G M+LY V+ ++ D S+ + +V N + + F
Sbjct: 1627 QEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSI---LDIVI------NNPVNLTIHFG 1677
Query: 230 ETFVGSILQNLECCLFVLFPYFSYMLAEGLGLSGIVSILFTGI--VMKRYTFS------N 281
I +N Y + + + +F I YTF +
Sbjct: 1678 GEKGKRIREN----------YSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLS 1727
Query: 282 LSENSQR--F-VS-AFFHLISSLAETFVF----IYMGFDIAMEKHSWSHLGFIFFSILFI 333
++ +Q + A F L + + G HS LG ++ L
Sbjct: 1728 ATQFTQPALTLMEKAAFED---LKSKGLIPADATFAG-------HS---LG--EYAAL-- 1770
Query: 334 IVARAANVFSCAYLVNLARPAHRQIPLKHQQALWYSGLRGAMAFALALQSVHDLPEGHGQ 393
+ A+V S LV + RG M +A+ +G
Sbjct: 1771 -AS-LADVMSIESLVEVVF------------------YRG-MTMQVAVPRDELGRSNYGM 1809
Query: 394 TIFSATTVIVVLT-------VLLIGGSTGTMLEA-------LQVV--GD 426
+ V + V +G TG ++E Q V GD
Sbjct: 1810 IAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGD 1858
Score = 32.7 bits (74), Expect = 0.38
Identities = 42/294 (14%), Positives = 92/294 (31%), Gaps = 90/294 (30%)
Query: 227 RFLETFVGSILQNLEC-----CLFVLFPYF--SYM-------LAEGLGLSGIVSILFTGI 272
+FL +V S+++ + L + F Y+ LA L +++ T
Sbjct: 63 KFLG-YVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKE 121
Query: 273 VMKRYTFSNLSEN---SQRFVSAFFHLISS-LAETF-VF-------IYMGFDIAME-KHS 319
++K Y + + ++ SA F + A+ +F Y F+ E +
Sbjct: 122 LIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDY--FE---ELRDL 176
Query: 320 WSHLGFIFFSILFIIVARAANVFSCAYLVNLARPAHRQIPLKHQQAL----WYSGLRGAM 375
+ + ++ ++ +A L L R + Q L W
Sbjct: 177 YQ----TYHVLVGDLIKFSAET-----LSELIRTTLDAEKV-FTQGLNILEW-------- 218
Query: 376 AFALALQSVHDLPEGHGQTIFSATTVIVVLTVLLIGGSTGTMLEALQVVGDAHDGHLGEN 435
L++ + P + + + L ++ + +++G G L
Sbjct: 219 -----LENPSNTP---DKDYLLSIPISCPLIGVI---QLAHYVVTAKLLGFTP-GELRSY 266
Query: 436 FEGNNGYAAPYDEG-------STSGNKLKMKLKEFRKSAASFTALDKNYLTPFF 482
+G G++ +G + + S SF + +T F
Sbjct: 267 LKGATGHS----QGLVTAVAIAET------------DSWESFFVSVRKAITVLF 304
>2htg_A NHE-1, NHE1 isoform of Na+/H+ exchanger 1, solute; membrane
protein, transmembrane segment, helix-KINK-helix; NMR
{Synthetic}
Length = 28
Score = 32.7 bits (74), Expect = 0.012
Identities = 13/21 (61%), Positives = 18/21 (85%)
Query: 186 LYALVFGESVLNDAMAISLYR 206
L+ LVFGES+LNDA+ + LY+
Sbjct: 6 LHILVFGESLLNDAVTVVLYK 26
>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 = 34.4 bits (78), Expect = 0.11
Identities = 39/240 (16%), Positives = 72/240 (30%), Gaps = 59/240 (24%)
Query: 33 IMMLVLSFVLGHVLRRHKFYYLPEASASLLIGLIVGALANISNTETNISAY-LLLDF--- 88
I ++LS ++ + L +L E+ IS + L+
Sbjct: 387 IPTILLS-----LIWFDVIKSDVMVVVNKLHKY---SLVEKQPKESTISIPSIYLELKVK 438
Query: 89 ---EFYLQHFSFLDSFRHTQS--GFSLSPKPFFSNFGAIVTFAIFGTFLASMVTGILVYL 143
E+ L H S +D + ++ L P F ++ G L ++ + L
Sbjct: 439 LENEYAL-HRSIVDHYNIPKTFDSDDLIPPYLDQYF-----YSHIGHHLKNIEHPERMTL 492
Query: 144 GGVMFLMYRLPFVECLMFGALISATDPVTVLSIFQELGTDMNLYALVFGESVLNDAMAIS 203
++FL +R F+E I A S+LN +
Sbjct: 493 FRMVFLDFR--FLE-----QKIRHDS-----------------TAWNASGSILNTLQQLK 528
Query: 204 LYRTMSLVRSHASSGQNFFMVIVRFLETFVGSILQNL----ECCL--FVLFPYFSYMLAE 257
Y+ + + +V + F+ I +NL L L + E
Sbjct: 529 FYK------PYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEE 582
>2k3c_A TMIX peptide; membrane peptide, dodecylphosphocholine micelle,
NHE1, Na+/H+ transporter, metal transport; NMR
{Synthetic}
Length = 33
Score = 29.7 bits (66), Expect = 0.16
Identities = 11/26 (42%), Positives = 20/26 (76%)
Query: 250 YFSYMLAEGLGLSGIVSILFTGIVMK 275
Y +Y+ AE LSGI++++ +G+VM+
Sbjct: 4 YMAYLSAELFHLSGIMALIASGVVMR 29
>3mp7_A Preprotein translocase subunit SECY; protein transport, membrane
protein complex, preprotein TRAN membrane insertion,;
2.90A {Pyrococcus furiosus}
Length = 482
Score = 28.4 bits (64), Expect = 6.3
Identities = 16/109 (14%), Positives = 37/109 (33%), Gaps = 12/109 (11%)
Query: 258 GLGLSGIVSILFTGIV--MKRYTFSNLSENSQRFVSAFFHLISSLAETFVFIYMGFDIAM 315
G+G SGI + G+ + + + L++ + I F+ + D+
Sbjct: 172 GIG-SGISLFIAAGVSQTILTRSLNPLTDPNIIDPLTGQPAIVGAIPYFIQHILKGDLWG 230
Query: 316 EKHSWSHLGFIFFSILFIIVARAANVFSCAYLVNLARPAHRQIPLKHQQ 364
+ + + I+V ++V +IPL ++
Sbjct: 231 AIYRGGSAPDMLSVVATIVV---------FFIVVYFESMRVEIPLGYRG 270
>3k85_A D-glycero-D-manno-heptose 1-phosphate kinase; bacteriodes
thetaiotaomicron, protein structure initiative II(PSI
II), nysgxrc; 2.28A {Bacteroides thetaiotaomicron}
Length = 357
Score = 27.9 bits (62), Expect = 7.5
Identities = 9/25 (36%), Positives = 17/25 (68%), Gaps = 2/25 (8%)
Query: 181 GTDMNLYALVFGESVLNDAMAISLY 205
G+D++ Y+ ++G +LN I+LY
Sbjct: 18 GSDVSPYSDIYGGLILN--ATINLY 40
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
0.326 0.140 0.409
Gapped
Lambda K H
0.267 0.0467 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,590,111
Number of extensions: 460893
Number of successful extensions: 1034
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1021
Number of HSP's successfully gapped: 20
Length of query: 498
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 400
Effective length of database: 3,965,535
Effective search space: 1586214000
Effective search space used: 1586214000
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 59 (27.1 bits)