RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9901
(390 letters)
>1yi9_A PAM, peptidyl-glycine alpha-amidating monooxygenase; bioactive
peptide activation, ascorbate, oxidoreductase; 1.70A
{Rattus norvegicus} SCOP: b.121.1.2 b.121.1.2 PDB:
1sdw_A* 3mib_A 3mic_A 3mid_A 3mie_A 3mif_A 3mig_A 3mih_A
3mlj_A 3mlk_A 3mll_A 1yip_A 1phm_A 1opm_A 3phm_A 1yjl_A
1yjk_A
Length = 309
Score = 148 bits (373), Expect = 8e-42
Identities = 91/253 (35%), Positives = 120/253 (47%), Gaps = 37/253 (14%)
Query: 157 CFSEGPPNYYWGMGDNLNNIPHPGPIIYAWARDAPSLILPEGVGFKVGGDTAIQYLVLQV 216
C YW + I+YAWAR+AP LP+GVGF+VGG+T +Y VLQV
Sbjct: 68 CNMPSSTGSYWFCDEG--TCTDKANILYAWARNAPPTRLPKGVGFRVGGETGSKYFVLQV 125
Query: 217 HYAHVEGFRDGHTDSSGVFLQYTRRPLTKEAGVLLLGTGGKI--PALSVENMETSCIMME 274
HY + FRD H D SGV + TR P AG+ L+ + + P V N + SC +
Sbjct: 126 HYGDISAFRDNHKDCSGVSVHLTRVPQPLIAGMYLMMSVDTVIPPGEKVVNADISCQ-YK 184
Query: 275 DKEIHPFAYRTHTHALGKEVQGYVVKKNNNLNRKDEWLLLGKRDPLTPQMFYPVEVNVTI 334
+H FAYR HTH LGK V GY V R +W L+G+++P PQ FYPVE V +
Sbjct: 185 MYPMHVFAYRVHTHHLGKVVSGYRV-------RNGQWTLIGRQNPQLPQAFYPVEHPVDV 237
Query: 335 HKGQ------------------------DEMCNFYLMYWVENSSPLETKYCFSEGPPNYY 370
G DE+CN Y+MY++E L C P+ +
Sbjct: 238 TFGDILAARCVFTGEGRTEATHIGGTSSDEICNLYIMYYMEAKYALSFMTCTKNVAPDMF 297
Query: 371 WGMGDNLNNIPHP 383
+ NIP P
Sbjct: 298 RTIPA-EANIPIP 309
Score = 89.6 bits (221), Expect = 3e-20
Identities = 39/103 (37%), Positives = 56/103 (54%), Gaps = 2/103 (1%)
Query: 78 LNRKDEWLLLGKRDPLTPQMFYPVEVNVTIHKGDVMAARCVMKN-YRNHETYVGSTGQDE 136
R +W L+G+++P PQ FYPVE V + GD++AARCV R T++G T DE
Sbjct: 208 RVRNGQWTLIGRQNPQLPQAFYPVEHPVDVTFGDILAARCVFTGEGRTEATHIGGTSSDE 267
Query: 137 MCNFYLMYWVENSSPLETKYCFSEGPPNYYWGMGDNLNNIPHP 179
+CN Y+MY++E L C P+ + + NIP P
Sbjct: 268 ICNLYIMYYMEAKYALSFMTCTKNVAPDMFRTIPA-EANIPIP 309
>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 = 48.3 bits (114), Expect = 3e-06
Identities = 57/383 (14%), Positives = 103/383 (26%), Gaps = 141/383 (36%)
Query: 60 KLKNSKEVQGYVVKKNNNLNRKD-EWLL-----------------LGKRDPL--TPQMFY 99
K + VQ +V + R + ++L+ + +RD L Q+F
Sbjct: 72 LSKQEEMVQKFV----EEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFA 127
Query: 100 PVEVNVTIHKGDVMAARCVMKNYRNHETYV---GSTG-----------QDE--MCNFYL- 142
NV+ + + R + R + V G G C
Sbjct: 128 KY--NVSRLQ-PYLKLRQALLELRPAK-NVLIDGVLGSGKTWVALDVCLSYKVQCKMDFK 183
Query: 143 MYWV---ENSSP---LE--TKYCFSEGPPNYYWGMGDNLNNIPHPGPIIYAWARDAPSLI 194
++W+ +SP LE K + P + D+ +NI + +
Sbjct: 184 IFWLNLKNCNSPETVLEMLQKLLYQIDPN--WTSRSDHSSNIKLR----IHSIQAELRRL 237
Query: 195 LPEGVGFKVGGDTAIQY----LVL-QVHYA-HVEGF----------RD-GHTDSSG---- 233
L Y LVL V A F R TD
Sbjct: 238 LKSK-----------PYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATT 286
Query: 234 --VFLQYTRRPLTKEAGVLLLGTGGKIPALSVENMETSCIMMEDKEIHPFAYRTHTHAL- 290
+ L + LT + LL L + + E +P ++
Sbjct: 287 THISLDHHSMTLTPDEVKSLL--------LKYLDCRPQDLPREVLTTNPRR-----LSII 333
Query: 291 GKEVQGYVVKKNNNLNRKDEWLLLGKR----------DPLTP----QMF-----YPVEVN 331
+ ++ + L D W + + L P +MF +P +
Sbjct: 334 AESIR-------DGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAH 386
Query: 332 VTIHKGQDEMCNFYLMYWVENSS 354
+ + + W +
Sbjct: 387 IPTIL----LS----LIWFDVIK 401
Score = 29.1 bits (64), Expect = 3.4
Identities = 9/40 (22%), Positives = 14/40 (35%), Gaps = 2/40 (5%)
Query: 334 IHKGQDEMCNFYLMYWVENSSPLETKYCFSEGP--PNYYW 371
I +D + ++W S E F E NY +
Sbjct: 54 IIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKF 93
>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 = 42.7 bits (100), Expect = 2e-04
Identities = 49/264 (18%), Positives = 82/264 (31%), Gaps = 83/264 (31%)
Query: 185 AWA-RDAPSLILPEG---VGFKVGGDTAIQYLVLQVHYAHV-----EGFRDGHTDSSGV- 234
A++ R L L G V + LQ + + EGF ++
Sbjct: 3 AYSTR---PLTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAE 59
Query: 235 ----FLQYTRRPLTKEAGVLLLGTGGKIPALSVENMETSCIMMEDKEIHPFAYRTHTHAL 290
FL Y + +G ++ L + E +E +IH A L
Sbjct: 60 LVGKFLGYVSSLVEPSK----VGQFDQVLNLCLTEFENCY--LEGNDIHALA-----AKL 108
Query: 291 GKEVQGYVVKKNNNLNRKDEWLLLGKRDPLTPQ----MFYPVEVN----VTIHKGQ---- 338
+E +VK + ++ KR P + +F V V I GQ
Sbjct: 109 LQENDTTLVKTKELIKNYITARIMAKR-PFDKKSNSALFRAVGEGNAQLVAIFGGQGNTD 167
Query: 339 ---DEMCNFYLMY------WVENS---------SPLETKYCFSEG-------------PP 367
+E+ + Y Y ++ S + L+ + F++G P
Sbjct: 168 DYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPD 227
Query: 368 NYYWGMGDNLNNIPHPGPVS-NLI 390
Y L +I P+S LI
Sbjct: 228 KDY------LLSI----PISCPLI 241
Score = 31.6 bits (71), Expect = 0.58
Identities = 31/186 (16%), Positives = 47/186 (25%), Gaps = 69/186 (37%)
Query: 6 RTPLEYRAVH---CDLIR-LNNTDHIVHTSD----ISISDKNIVGTQIFGYENPCKTCHP 57
RT L+ V +++ L N + D I IS I Q+ Y K
Sbjct: 200 RTTLDAEKVFTQGLNILEWLENPSN-TPDKDYLLSIPISCPLIGVIQLAHYVVTAKL--- 255
Query: 58 SSKLKNSKEVQGYVVKKNNNLNRKDEWLLLGKRDPLTPQMFYPVEVNVTIHKGDVMAARC 117
LG TP T H ++ A
Sbjct: 256 -----------------------------LG----FTPGELRSYLKGATGHSQGLVTAVA 282
Query: 118 V---------MKNYRNHET---YVGSTGQDEMCNFYLMYWVENSSPLETKYCF--SEGPP 163
+ + R T ++G + N L P + +EG P
Sbjct: 283 IAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSL-------PPSILEDSLENNEGVP 335
Query: 164 NYYWGM 169
+ M
Sbjct: 336 SP---M 338
>2w45_A Nuclease, alkaline exonuclease; endonuclease, gamma-herpesvirus,
EBV, BGLF5, DNAse, hydrolase, epstein-BARR virus; 3.00A
{Human herpesvirus 4} PDB: 2w4b_A
Length = 470
Score = 28.1 bits (62), Expect = 5.2
Identities = 11/56 (19%), Positives = 22/56 (39%), Gaps = 2/56 (3%)
Query: 207 TAIQYLVLQVHYAHVEGFRDGHTDSSGVFL--QYTRRPLTKEAGVLLLGTGGKIPA 260
+QY ++ + H G + G S V + + R+ + LG+ + A
Sbjct: 358 VLLQYKIVGDYVRHSGGGKPGRDCSPRVNIVTAFFRKRSPLDPATCTLGSDLLLDA 413
>3b3j_A Histone-arginine methyltransferase CARM1; protein arginine
methyltransferase 4, APO catalytic domain, regulator,
mRNA processing; 2.55A {Rattus norvegicus}
Length = 480
Score = 28.2 bits (62), Expect = 5.3
Identities = 15/88 (17%), Positives = 25/88 (28%), Gaps = 9/88 (10%)
Query: 96 QMFYPVEVNVTIHKGDVMAARCVMK-NYRNH-----ETYVGSTGQDEMCNFYL---MYWV 146
Q+ + + GD ++ C++ N R V TG L +
Sbjct: 391 QVRCLFQSPLFAKAGDTLSGTCLLIANKRQSYDISIVAQVDQTGSKSSNLLDLKNPFFRY 450
Query: 147 ENSSPLETKYCFSEGPPNYYWGMGDNLN 174
++P P W G N
Sbjct: 451 TGTTPSPPPGSHYTSPSENMWNTGSTYN 478
>3ixz_B Potassium-transporting ATPase subunit beta; ION pump, H+,
K+-ATPase, P-type ATPase, membrane protein, hydrolase,
aluminium fluoride, ATP-binding; 6.50A {Sus scrofa} PDB:
2xzb_B
Length = 290
Score = 27.3 bits (60), Expect = 7.7
Identities = 12/68 (17%), Positives = 22/68 (32%)
Query: 117 CVMKNYRNHETYVGSTGQDEMCNFYLMYWVENSSPLETKYCFSEGPPNYYWGMGDNLNNI 176
C + Y E+++ C F S + + F+EG P + M + +
Sbjct: 131 CTSEKYFFQESFLAPNHTKFSCKFTADMLQNCSGRPDPTFGFAEGKPCFIIKMNRIVKFL 190
Query: 177 PHPGPIIY 184
P
Sbjct: 191 PGNSTAPR 198
>3ge5_A Putative NAD(P)H:FMN oxidoreductase; structural genomics, joint
center for structural genomics, J protein structure
initiative; HET: FMN UNL; 1.70A {Porphyromonas
gingivalis W83}
Length = 198
Score = 27.3 bits (61), Expect = 7.8
Identities = 12/51 (23%), Positives = 20/51 (39%), Gaps = 14/51 (27%)
Query: 184 YAWARDAPSLIL----PEGVGFKVGGDT-------AIQYLVLQVHYAHVEG 223
W AP I+ + + GD+ A+ Y++L+ AH G
Sbjct: 92 QPWFPGAPIYIITLGDHQRAWKRGAGDSVDIDTSIAMTYMMLE---AHSLG 139
>2zxe_B Na+,K+-ATPase beta subunit; membrane protein, ION pump, ATPase, K+
binding, haloacid dehydrogenease superfamily, phosphate
analogue; HET: CLR NAG NDG; 2.40A {Squalus acanthias}
PDB: 3a3y_B* 3b8e_B*
Length = 305
Score = 27.4 bits (60), Expect = 8.5
Identities = 15/83 (18%), Positives = 26/83 (31%)
Query: 117 CVMKNYRNHETYVGSTGQDEMCNFYLMYWVENSSPLETKYCFSEGPPNYYWGMGDNLNNI 176
+Y S GQ + C F M+ S +T Y ++EG P + +
Sbjct: 129 DTPADYIKRGDLDDSQGQKKACRFSRMWLKNCSGLDDTTYGYAEGKPCVVAKLNRIIGFY 188
Query: 177 PHPGPIIYAWARDAPSLILPEGV 199
P P + + +
Sbjct: 189 PKPLKNTTDLPEELQANYNQYVL 211
>1xoc_A Oligopeptide-binding protein APPA; oligopeptide, APPA, transport,
transport protein; 1.55A {Bacillus subtilis} SCOP:
c.94.1.1
Length = 520
Score = 27.3 bits (61), Expect = 9.6
Identities = 8/41 (19%), Positives = 18/41 (43%)
Query: 271 IMMEDKEIHPFAYRTHTHALGKEVQGYVVKKNNNLNRKDEW 311
+ ED+ Y + A+ + ++GY +L ++W
Sbjct: 476 KIAEDQPYTFLYYPNNHMAMPENLEGYKYHPKRDLYNIEKW 516
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 0.137 0.437
Gapped
Lambda K H
0.267 0.0721 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,073,636
Number of extensions: 353235
Number of successful extensions: 754
Number of sequences better than 10.0: 1
Number of HSP's gapped: 748
Number of HSP's successfully gapped: 21
Length of query: 390
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 295
Effective length of database: 4,049,298
Effective search space: 1194542910
Effective search space used: 1194542910
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: 58 (26.1 bits)