RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 010004
(520 letters)
>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 = 47.2 bits (111), Expect = 1e-05
Identities = 66/392 (16%), Positives = 120/392 (30%), Gaps = 125/392 (31%)
Query: 30 CLIVGHLLEENRWVNESITAILIGCVSGIIILSITKWKS----------SHI-------- 71
CL+V L N ++ A + C IL T++K +HI
Sbjct: 246 CLLV---LL-NVQNAKAWNAFNLSCK----ILLTTRFKQVTDFLSAATTTHISLDHHSMT 297
Query: 72 LRFDE--ELFFIYL------LPPIIFNAGFQVKKKQFFHNFLTIMMFGVIGVFISVSIIT 123
L DE L YL LP +V N + +I I + T
Sbjct: 298 LTPDEVKSLLLKYLDCRPQDLPR-------EVLT----TNPRRL---SIIAESIRDGLAT 343
Query: 124 VGSW--WLFPKLGFMGLSIQDYLALGTIFSSTDTVCTLQILNQDETPLLY-SL-VFGEGV 179
W W + L TI S+ L +L E ++ L VF
Sbjct: 344 ---WDNWKHV----------NCDKLTTIIESS-----LNVLEPAEYRKMFDRLSVFPPSA 385
Query: 180 -VNDATSVVLFNAVQKIDVR----ELNGKAALRIFRDFLYLFSTSTILGVTAGLLTALVL 234
+ +++ V K DV +L+ + + + ST +I + L + L
Sbjct: 386 HIPTILLSLIWFDVIKSDVMVVVNKLHKYSLV--EKQPKE--STISIPSIY--LELKVKL 439
Query: 235 KTLYFGKHSSVREIALMVLMAYLSYILAELLELSGILTVFFCGIFMSHYAWHNMTDSSRI 294
+ Y H S+ + Y + + + ++ + F SH H + +
Sbjct: 440 ENEY-ALHRSIVD----------HYNIPKTFDSDDLIPPYLDQYFYSHIGHH-LKNIEHP 487
Query: 295 TTRHTFAMMSFIAETFIFL-----YVG---------MDAF-DIEKWRMSKLSFVT-SLGV 338
+ + F FL + ++ ++ ++ ++ +
Sbjct: 488 ---ERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYK----PYICDNDPK 540
Query: 339 YSALILMILLGRAAFVFPLSLLSNYMNSHRSP 370
Y L+ IL F+ + N S
Sbjct: 541 YERLVNAIL----DFLPKIE-----ENLICSK 563
>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 = 42.3 bits (99), Expect = 4e-04
Identities = 25/159 (15%), Positives = 51/159 (32%), Gaps = 46/159 (28%)
Query: 235 KTLYFGKHSSVREI---ALMVLMAYLSY-ILAELLELSGILTVFFCGI--------FMSH 282
LY + +++ A + IL ++ LT+ F G + +
Sbjct: 1633 MDLY-KTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSA- 1690
Query: 283 YAWHNMTDSSRITTRHTFAMMSFIAETFIF------LY-----------VGMDAF-DIEK 324
+ + D ++ T F ++ + ++ F L + AF D++
Sbjct: 1691 MIFETIVDG-KLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKS 1749
Query: 325 WRMSKLSFVT---SLGVYSALILMILLGRAAF--VFPLS 358
+ SLG Y+AL A+ V +
Sbjct: 1750 KGLIPADATFAGHSLGEYAAL--------ASLADVMSIE 1780
Score = 36.2 bits (83), Expect = 0.028
Identities = 64/443 (14%), Positives = 122/443 (27%), Gaps = 194/443 (43%)
Query: 74 FDE--ELFFIYLLPPIIFNAGFQVKKKQFFHNFLTIMMFGVIGVFISVSIITVGSWWLFP 131
F+E +L+ Y ++ + T+ + +F
Sbjct: 170 FEELRDLYQTY--HVLV---------GDLIKF--------SAETLSELIRTTLDAEKVFT 210
Query: 132 KLGFMGLSIQDYLALGTIFSSTDTVCTLQILNQDETP----LLYSLVFGEGVVNDATSVV 187
+ GL+I ++L N TP LL + S
Sbjct: 211 Q----GLNILEWLE-----------------NPSNTPDKDYLLSIPI----------SCP 239
Query: 188 LFNAVQ----KIDVRELN---GKAALRIFRDFLYLFSTSTILGVTAGLLTALVL------ 234
L +Q + + L G+ R +L G + GL+TA+ +
Sbjct: 240 LIGVIQLAHYVVTAKLLGFTPGE-----LRSYL-----KGATGHSQGLVTAVAIAETDSW 289
Query: 235 KTLYFGKHSSVREIALMVLMAYLSYILAELLELSGILTVFFCGIFMSHYAWHNMTDSSRI 294
++ + + +L FF G + A+ N + I
Sbjct: 290 ESFF--------VSVRKAI---------TVL--------FFIG-VRCYEAYPNTSLPPSI 323
Query: 295 ---TTRHTFAMMSFIAETFIFLYV-GMDAFDIEKWRMSKLSFVTSLG----VYSALILMI 346
+ + + S + L + + ++ ++K + + L V +L+
Sbjct: 324 LEDSLENNEGVPSPM------LSISNLTQEQVQD-YVNKTN--SHLPAGKQVEISLV--- 371
Query: 347 LLGRAAFV---FPLSL--LSNY---------MNSHRSP--------SISFN------H-- 376
G V P SL L+ ++ R P S F H
Sbjct: 372 -NGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSH 430
Query: 377 ------QVVIWWAGLMRGAVSIA---LAFKQF-TYSG-----------------VTSDP- 408
++ L++ VS + + T+ G + P
Sbjct: 431 LLVPASDLIN--KDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPV 488
Query: 409 --DSATMITATIIIVLFTTLVFG 429
++ T AT I L FG
Sbjct: 489 KWETTTQFKATHI------LDFG 505
Score = 33.1 bits (75), Expect = 0.27
Identities = 29/158 (18%), Positives = 46/158 (29%), Gaps = 60/158 (37%)
Query: 117 ISVSIITV-GSWWLFPKLG-FMGLSIQDYLAL---GTIFSSTDTVCTL--------QILN 163
+ + S L P F G S+ +Y AL + S V + +
Sbjct: 1739 MEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVP 1798
Query: 164 QDET-----------PLLYSLVFGE--------------G----VVND------------ 182
+DE P + F + G +VN
Sbjct: 1799 RDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGD 1858
Query: 183 ------ATSVVLFNAVQKIDVRELNGKAALRIFRDFLY 214
T+V+ F +QKID+ EL +L L+
Sbjct: 1859 LRALDTVTNVLNFIKLQKIDIIELQKSLSLEEVEGHLF 1896
Score = 29.6 bits (66), Expect = 3.0
Identities = 14/41 (34%), Positives = 22/41 (53%), Gaps = 10/41 (24%)
Query: 41 RWVNESITAILIGCVSGIIILSITKW------KSSHILRFD 75
R ++ SI+ ++ C II L + KW K++HIL F
Sbjct: 469 RVLSGSISERIVDC---IIRLPV-KWETTTQFKATHILDFG 505
>2k3c_A TMIX peptide; membrane peptide, dodecylphosphocholine micelle,
NHE1, Na+/H+ transporter, metal transport; NMR
{Synthetic}
Length = 33
Score = 33.9 bits (77), Expect = 0.005
Identities = 11/26 (42%), Positives = 18/26 (69%)
Query: 255 AYLSYILAELLELSGILTVFFCGIFM 280
+Y++Y+ AEL LSGI+ + G+ M
Sbjct: 3 SYMAYLSAELFHLSGIMALIASGVVM 28
>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 = 0.035
Identities = 9/56 (16%), Positives = 17/56 (30%), Gaps = 27/56 (48%)
Query: 323 EKWRMSKLSFVTSLGVYSALILMILLGRAAFVFPLSLLSNYMNSHRSPSISFNHQV 378
EK + KL SL +Y+ S +P+++ +
Sbjct: 18 EKQALKKLQ--ASLKLYA---------------DDS----------APALAIKATM 46
Score = 33.0 bits (74), Expect = 0.12
Identities = 9/31 (29%), Positives = 12/31 (38%), Gaps = 12/31 (38%)
Query: 395 AFKQFT-----YSGVTSDPDSAT--MITATI 418
A K+ Y+ DSA I AT+
Sbjct: 21 ALKKLQASLKLYA-----DDSAPALAIKATM 46
>1y4e_A Sodium/hydrogen exchanger 1; NHE1 isoform, transmembrane,
membrane protein; HET: HSL; NMR {Homo sapiens}
Length = 27
Score = 30.6 bits (69), Expect = 0.068
Identities = 10/20 (50%), Positives = 16/20 (80%)
Query: 74 FDEELFFIYLLPPIIFNAGF 93
++FF++LLPPII +AG+
Sbjct: 2 LQSDVFFLFLLPPIILDAGY 21
>2htg_A NHE-1, NHE1 isoform of Na+/H+ exchanger 1, solute; membrane
protein, transmembrane segment, helix-KINK-helix; NMR
{Synthetic}
Length = 28
Score = 29.6 bits (66), Expect = 0.15
Identities = 13/21 (61%), Positives = 18/21 (85%)
Query: 169 LLYSLVFGEGVVNDATSVVLF 189
LL+ LVFGE ++NDA +VVL+
Sbjct: 5 LLHILVFGESLLNDAVTVVLY 25
>1mhs_A Proton pump, plasma membrane ATPase; ION transport, membrane
protein, P-type ATPase, active transport, cryo-electron
microscopy; 8.00A {Neurospora crassa} SCOP: i.18.1.1
Length = 920
Score = 31.5 bits (72), Expect = 0.74
Identities = 22/174 (12%), Positives = 40/174 (22%), Gaps = 40/174 (22%)
Query: 286 HNMTDSSRITTRHTFAMMSFIAETFIFLYVGMDAFDI----------------------- 322
H M + + F+ L ++ +
Sbjct: 686 HRMYAYVVYRIALSIHLEIFLGLWIAILNRSLNIELVVFIAIFADVATLAIAYDNAPYSQ 745
Query: 323 --EKWRMSKLS-FVTSLGVYSALILMILLGRAAFVFPLSLLSNYMNSHRSPSISFNHQVV 379
KW + KL LGV A+ I + N + F +
Sbjct: 746 TPVKWNLPKLWGMSVLLGVVLAVGTWITVTTMYAQGENG--GIVQNFGNMDEVLFLQISL 803
Query: 380 IWWAGLMRGAVSIALAFKQFTYSGVTSDPDSATMITATIIIVLFTTL--VFGFL 431
L F S S + A ++ + T ++G+
Sbjct: 804 T----------ENWLIFITRANGPFWSSIPSWQLSGAIFLVDILATCFTIWGWF 847
>3vcn_A Mannonate dehydratase; enolase, magnesium binding site, enzyme
function initiative, lyase; 1.45A {Caulobacter
crescentus} PDB: 4fi4_A 3thu_A
Length = 425
Score = 29.9 bits (68), Expect = 2.3
Identities = 8/31 (25%), Positives = 16/31 (51%), Gaps = 1/31 (3%)
Query: 298 HTFAMMSFIAETFIFLYVGMDAFDIEK-WRM 327
+++SF+ + + +G DA IE W+
Sbjct: 62 RELSVVSFLQDHMVPSLIGRDAHQIEDIWQF 92
>4e4f_A Mannonate dehydratase; magnesium binding, enzyme function
initiative, isomerase; 2.00A {Pectobacterium carotovorum
subsp}
Length = 426
Score = 29.1 bits (66), Expect = 3.3
Identities = 7/31 (22%), Positives = 13/31 (41%), Gaps = 1/31 (3%)
Query: 298 HTFAMMSFIAETFIFLYVGMDAFDIEK-WRM 327
+ S++ + +G DA IE W+
Sbjct: 61 RELPVASYLNDHVCPQLIGRDAHQIEDIWQY 91
>3ozy_A Putative mandelate racemase; beta-alpha barrel, enolase superfamily
member, M-xylarate, U function; HET: DXL; 1.30A
{Bordetella bronchiseptica} PDB: 3ozm_A* 3h12_A 3op2_A*
Length = 389
Score = 29.2 bits (66), Expect = 3.7
Identities = 7/45 (15%), Positives = 14/45 (31%), Gaps = 2/45 (4%)
Query: 295 TTRHTFAMMSFIAETFIFLYVGMDAFDIEK-W-RMSKLSFVTSLG 337
+ I + +G D +I W ++ +LG
Sbjct: 54 GPYDLAVLKRAIEDVIGPQLIGEDPANINYLWHKVFHGEVSRNLG 98
>3r4e_A Mandelate racemase/muconate lactonizing enzyme; enolase fold,
mannonate dehydratase, D-mannonate, lyase; HET: CS2;
1.65A {Novosphingobium aromaticivorans} PDB: 2qjj_A
2qjn_A* 2qjm_A*
Length = 418
Score = 29.1 bits (66), Expect = 4.0
Identities = 7/31 (22%), Positives = 15/31 (48%), Gaps = 1/31 (3%)
Query: 298 HTFAMMSFIAETFIFLYVGMDAFDIEK-WRM 327
++++++ E +GMD IE W+
Sbjct: 55 RELSVVAYLQEHVAPCLIGMDPRRIEDIWQY 85
>4e4u_A Mandalate racemase/muconate lactonizing enzyme; mandelate racemase,
aldolase, structural genomics, biology; 1.35A
{Unidentified}
Length = 412
Score = 29.2 bits (66), Expect = 4.1
Identities = 8/33 (24%), Positives = 13/33 (39%), Gaps = 1/33 (3%)
Query: 296 TRHTFAMMSFIAETFIFLYVGMDAFDIEK-WRM 327
T AM I + F + D +E+ +R
Sbjct: 44 TFGPKAMAPIIDDVFERHLLNRDPHHVERLFRQ 76
>3t6c_A RSPA, putative MAND family dehydratase; enolase, mannonate
dehydratase related protein, enzyme funct intitiative,
lyase, hydro-lyases; HET: GCO; 1.60A {Pantoea ananatis}
PDB: 3tw9_A 3twa_A 3twb_A*
Length = 440
Score = 28.5 bits (64), Expect = 5.4
Identities = 9/31 (29%), Positives = 13/31 (41%), Gaps = 1/31 (3%)
Query: 298 HTFAMMSFIAETFIFLYVGMDAFDIEK-WRM 327
+A+ S I E +G D IE W+
Sbjct: 67 RIYAVQSAIDEYLAPFLIGKDPARIEDIWQS 97
>3v3w_A Starvation sensing protein RSPA; enolase, enzyme function
initiative, EFI, lyase; HET: NHE; 1.40A {Cellvibrio
japonicus} PDB: 3v4b_A* 4f4r_A 3qkf_A* 3qke_A* 3p93_A*
3ow1_A 3pk7_A* 3rgt_A* 3bsm_A
Length = 424
Score = 28.7 bits (65), Expect = 5.5
Identities = 7/31 (22%), Positives = 16/31 (51%), Gaps = 1/31 (3%)
Query: 298 HTFAMMSFIAETFIFLYVGMDAFDIEK-WRM 327
+++S++ + I + +G D IE W+
Sbjct: 61 REKSVVSYLEDYLIPVLIGRDPQQIEDIWQF 91
>3tji_A Mandelate racemase/muconate lactonizing enzyme, N domain protein;
enolase, dehydratase, enzyme function initiative, EFI,
lyase; 1.80A {Enterobacter SP}
Length = 422
Score = 28.4 bits (64), Expect = 5.7
Identities = 10/33 (30%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 296 TRHTFAMMSFIAETFIFLYVGMDAFDIEK-WRM 327
+ A+ + + E L +G DA +IE W+M
Sbjct: 64 QQRPLAVKTLVDEYLQPLMIGRDANNIEDLWQM 96
>3dip_A Enolase; structural genomics, isomerase, PSI-2, protein structure
initiative, NEW YORK SGX research center for structural
genomics, NYSGXRC, lyase; HET: SIC; 2.50A {Unidentified}
Length = 410
Score = 28.4 bits (64), Expect = 5.8
Identities = 7/34 (20%), Positives = 12/34 (35%), Gaps = 1/34 (2%)
Query: 295 TTRHTFAMMSFIAETFIFLYVGMDAFDIEK-WRM 327
T R A+ + + E +G A +I
Sbjct: 37 TFRGAQAVEAVLHEQTAPAIIGRAAENITSISSE 70
>3sbf_A Mandelate racemase / muconate lactonizing enzyme; enolase fold,
acid sugar dehydratase, D-araninonate, isomera; HET: EPE
D8T; 1.50A {Vibrionales bacterium swat-3} PDB: 3r25_A
3dfh_A 3s47_A 3gy1_A
Length = 401
Score = 28.3 bits (64), Expect = 6.7
Identities = 8/31 (25%), Positives = 16/31 (51%), Gaps = 1/31 (3%)
Query: 298 HTFAMMSFIAETFIFLYVGMDAFDIEK-WRM 327
A+ + + E + +G +A +IE W+M
Sbjct: 45 RPLAVKTMVDEYLKPILIGKNANNIEDLWQM 75
>3rcy_A Mandelate racemase/muconate lactonizing enzyme-LI protein;
structural genomics, protein structure initiative; HET:
RIB; 1.99A {Roseovarius SP} PDB: 3t4w_A
Length = 433
Score = 28.1 bits (63), Expect = 7.7
Identities = 8/33 (24%), Positives = 14/33 (42%), Gaps = 1/33 (3%)
Query: 296 TRHTFAMMSFIAETFIFLYVGMDAFDIEK-WRM 327
+ AM + I + F G + +IE +R
Sbjct: 45 SVGPEAMRAVIEDVFARHMEGENPENIELMFRR 77
>2nql_A AGR_PAT_674P, isomerase/lactonizing enzyme; enolase, structural
genomics, protein structure initiative, nysgxrc; 1.80A
{Agrobacterium tumefaciens str} PDB: 4dn1_A
Length = 388
Score = 28.0 bits (63), Expect = 8.7
Identities = 6/34 (17%), Positives = 11/34 (32%), Gaps = 1/34 (2%)
Query: 295 TTRHTFAMMSFIAETFIFLYVGMDAFDIEK-WRM 327
A+ + I + +G DA D +
Sbjct: 71 GIVAPGAVAALINDLLAGFVIGRDASDPSAVYDD 104
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
0.328 0.140 0.424
Gapped
Lambda K H
0.267 0.0747 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,849,496
Number of extensions: 469558
Number of successful extensions: 1099
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1095
Number of HSP's successfully gapped: 40
Length of query: 520
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 422
Effective length of database: 3,965,535
Effective search space: 1673455770
Effective search space used: 1673455770
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 (21.8 bits)
S2: 59 (26.5 bits)