RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10465
(309 letters)
>2cy7_A Cysteine protease APG4B; papain-like fold, autophagy, hydrolase;
1.90A {Homo sapiens} SCOP: d.3.1.22 PDB: 2d1i_A 2zzp_A
2z0d_A 2z0e_A
Length = 396
Score = 271 bits (693), Expect = 2e-89
Identities = 139/316 (43%), Positives = 184/316 (58%), Gaps = 57/316 (18%)
Query: 8 SHQDLEQIRRDITSRLWFTYRKGFVPIGDSGLTTDKGWGCMLRCGQMVIAQALLFLHLGR 67
+ ++I D+ SRLWFTYRK F IG +G T+D GWGCMLRCGQM+ AQAL+ HLGR
Sbjct: 38 IFTEKDEILSDVASRLWFTYRKNFPAIGGTGPTSDTGWGCMLRCGQMIFAQALVCRHLGR 97
Query: 68 DWQWNVNSK-EEAYLKILKMFEDRRTAPYSIHQIALTGASEGKAVGEWFGPNTVAQVLRK 126
DW+W + ++Y +L F DR+ + YSIHQIA G EGK++G+W+GPNTVAQVL+K
Sbjct: 98 DWRWTQRKRQPDSYFSVLNAFIDRKDSYYSIHQIAQMGVGEGKSIGQWYGPNTVAQVLKK 157
Query: 127 LAKYDDWSSIVFHVALDNTLVVNQVKKLCTTNKRASS----------------------- 163
LA +D WSS+ H+A+DNT+V+ ++++LC T+ +
Sbjct: 158 LAVFDTWSSLAVHIAMDNTVVMEEIRRLCRTSVPCAGATAFPADSDRHCNGFPAGAEVTN 217
Query: 164 -NPQWQPLVLVIPLRLGIQDINPVYINGIKKCYALPISPVYDMVKILSSTYNMQTPRYEF 222
W+PLVL+IPLRLG+ DIN Y+ +K C F
Sbjct: 218 RPSPWRPLVLLIPLRLGLTDINEAYVETLKHC---------------------------F 250
Query: 223 TFPQSLGVIGGKPNHALYFIGYVGNDVIFLDPHTNQNIGCVYDKEQDSEKKLDSTYHCPQ 282
PQSLGVIGGKPN A YFIGYVG ++I+LDPHT Q + D D ++HC
Sbjct: 251 MMPQSLGVIGGKPNSAHYFIGYVGEELIYLDPHTTQP----AVEPTDGCFIPDESFHCQH 306
Query: 283 AS-RLHILHMDPSIAV 297
R+ I +DPSIAV
Sbjct: 307 PPCRMSIAELDPSIAV 322
>2p82_A Cysteine protease ATG4A; autophagy, hydrolase, protein transport,
thiol Pro transport, UBL conjugation pathway, structural
genomics; 2.10A {Homo sapiens} SCOP: d.3.1.22
Length = 355
Score = 265 bits (678), Expect = 1e-87
Identities = 131/311 (42%), Positives = 189/311 (60%), Gaps = 53/311 (17%)
Query: 10 QDLEQIRRDITSRLWFTYRKGFVPIGDSGLTTDKGWGCMLRCGQMVIAQALLFLHLGRDW 69
+ ++ DI++RLWFTYR+ F PIG +G ++D GWGCMLRCGQM++AQAL+ HLGRDW
Sbjct: 36 TEKSKLLSDISARLWFTYRRKFSPIGGTGPSSDAGWGCMLRCGQMMLAQALICRHLGRDW 95
Query: 70 QWNVN-SKEEAYLKILKMFEDRRTAPYSIHQIALTGASEGKAVGEWFGPNTVAQVLRKLA 128
W + + Y +IL+ F DR+ YSIHQ+A G EGK++GEWFGPNTVAQVL+KLA
Sbjct: 96 SWEKQKEQPKEYQRILQCFLDRKDCCYSIHQMAQMGVGEGKSIGEWFGPNTVAQVLKKLA 155
Query: 129 KYDDWSSIVFHVALDNTLVVNQVKKLCTTNKRASS----------------------NPQ 166
+D+W+S+ +V++DNT+V+ +KK+C ++
Sbjct: 156 LFDEWNSLAVYVSMDNTVVIEDIKKMCRVLPLSADTAGDRPPDSLTASNQSKGTSAYCSA 215
Query: 167 WQPLVLVIPLRLGIQDINPVYINGIKKCYALPISPVYDMVKILSSTYNMQTPRYEFTFPQ 226
W+PL+L++PLRLGI INPVY++ K+C F PQ
Sbjct: 216 WKPLLLIVPLRLGINQINPVYVDAFKEC---------------------------FKMPQ 248
Query: 227 SLGVIGGKPNHALYFIGYVGNDVIFLDPHTNQNIGCVYDKEQDSEKKLDSTYHCPQASRL 286
SLG +GGKPN+A YFIG++G+++IFLDPHT Q D E++ + + R+
Sbjct: 249 SLGALGGKPNNAYYFIGFLGDELIFLDPHTTQT---FVDTEENGTVNDQTFHCLQSPQRM 305
Query: 287 HILHMDPSIAV 297
+IL++DPS+A+
Sbjct: 306 NILNLDPSVAL 316
>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 = 44.3 bits (104), Expect = 4e-05
Identities = 71/407 (17%), Positives = 118/407 (28%), Gaps = 151/407 (37%)
Query: 7 LSHQDLEQIRRDITSRLWFTY---RKGF---VPIGDSGLTTDKGWGCMLRCGQMVIAQA- 59
LSH LE + + +F ++ F +P G D A
Sbjct: 11 LSHGSLE-HVLLVPTASFFIASQLQEQFNKILPEPTEGFAAD----------DEPTTPAE 59
Query: 60 LL--FL-HLGRDWQWNVNSKEEAYLK-ILKMFEDRRTAPY----SIHQIA---------- 101
L+ FL ++ + + + + L L FE+ Y IH +A
Sbjct: 60 LVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENC----YLEGNDIHALAAKLLQENDTT 115
Query: 102 ------------------------------LTGASEGK----AVGEWFG----PNTVAQV 123
EG A+ FG + +
Sbjct: 116 LVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAI---FGGQGNTDDYFEE 172
Query: 124 LRKLAKYDDWSSIV--FHVALDNTLVVNQVKKLCTTNKRASS-------------NPQWQ 168
LR L Y + +V TL +L T A NP
Sbjct: 173 LRDL--YQTYHVLVGDLIKFSAETL-----SELIRTTLDAEKVFTQGLNILEWLENPSNT 225
Query: 169 P----LVLV---IPLRLGI-QDINPVYINGIKKCYALPISP--VYDMVK--------ILS 210
P L+ + PL +G+ Q + Y+ L +P + +K +++
Sbjct: 226 PDKDYLLSIPISCPL-IGVIQLAH--YVV---TAKLLGFTPGELRSYLKGATGHSQGLVT 279
Query: 211 STYNMQTPRYE-FTFPQSLGVIGGKPNHALYFIGYVGND---VIFLDPHTNQ-----NIG 261
+ +T +E F F I L+FIG + L P + N G
Sbjct: 280 AVAIAETDSWESF-FVSVRKAI-----TVLFFIGVRCYEAYPNTSLPPSILEDSLENNEG 333
Query: 262 ------CVYDKEQDS-EKKLDST-YHCPQASRLHI-LHMDPSIAVVS 299
+ + Q+ + ++ T H P ++ I L VVS
Sbjct: 334 VPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVS 380
Score = 38.9 bits (90), Expect = 0.002
Identities = 52/290 (17%), Positives = 90/290 (31%), Gaps = 104/290 (35%)
Query: 61 LFLHLGRD-WQW--NVNSK-EEAYLKILKMFEDRRTAPYSIHQIALTGASE--------G 108
+F G + +W N ++ ++ YL + P S I + + G
Sbjct: 208 VFTQ-GLNILEWLENPSNTPDKDYL---------LSIPISCPLIGVIQLAHYVVTAKLLG 257
Query: 109 KAVGEWF----GPNTVAQVL---RKLAKYDDWSSIVFHVALDNTLVVNQVKKL------C 155
GE G +Q L +A+ D W S F V++ + V L C
Sbjct: 258 FTPGELRSYLKGATGHSQGLVTAVAIAETDSWES--FFVSVRKAITV-----LFFIGVRC 310
Query: 156 TTNKRASSNPQWQPLVLVIPLR---------LGIQDINPVYING-IKKCYA-LPISPVYD 204
A N P +L L L I ++ + + K + LP
Sbjct: 311 Y---EAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQ-- 365
Query: 205 MVKILSSTYNMQTPRYEFTFPQSLGVIGGKPNHALYFIGYVGNDVIFLDPHTNQNIGCVY 264
V+I S N + V+ G P +LY G L+ +
Sbjct: 366 -VEI--SLVN--GAK---NL-----VVSGPP-QSLY--G--------LNLTL-RKAKAPS 400
Query: 265 DKEQD----SEKKLDST---------YHCPQASRLHILHMDPSIAVVSQR 301
+Q SE+KL + +H + P+ ++++
Sbjct: 401 GLDQSRIPFSERKLKFSNRFLPVASPFHSH--------LLVPASDLINKD 442
Score = 35.8 bits (82), Expect = 0.020
Identities = 50/337 (14%), Positives = 90/337 (26%), Gaps = 140/337 (41%)
Query: 30 GFVPIGD-----SGLTTDKGWGCMLRCGQMVIAQALLFLHLGRDWQWNVNSKEEAYLKIL 84
GF P G+ G T Q ++ A+ + W+ S + K +
Sbjct: 257 GFTP-GELRSYLKGATG---------HSQGLVT-AV-AIAETDSWE----SFFVSVRKAI 300
Query: 85 K-MF----EDRRTAPY-----SIHQIALTGASEGK-----AVGEWFGPN--TVAQVLRKL 127
+F P SI + +L +EG ++ V + K
Sbjct: 301 TVLFFIGVRCYEAYPNTSLPPSILEDSLEN-NEGVPSPMLSIS---NLTQEQVQDYVNKT 356
Query: 128 AKYDDWSSIVFHVALDNT---LVV-----------NQVKKLCTTNKRASSNPQWQPLVLV 173
+ V ++L N LVV ++K K S Q +
Sbjct: 357 NSHLPAGKQV-EISLVNGAKNLVVSGPPQSLYGLNLTLRKA----KAPSGLDQSR----- 406
Query: 174 IPL--RLGIQDINPVYINGIKKCYALPIS---------PVYDMVKILSSTYNMQTPRYEF 222
IP R + N + LP++ P D++ +
Sbjct: 407 IPFSER------KLKFSN----RF-LPVASPFHSHLLVPASDLIN-------KDLVKNNV 448
Query: 223 TF-PQSLGVIGGKPNHALYFIGYVGNDVIFLDPHTNQNIGCVYDKEQDSEKKLDSTYHCP 281
+F + + + P +Y D ++ + +
Sbjct: 449 SFNAKDIQI----P---VY------------DTFDGSDL-------RVLSGSISER-IVD 481
Query: 282 QASRL-------------HILHMDPS----IAVVSQR 301
RL HIL P + V++ R
Sbjct: 482 CIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHR 518
>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 = 35.7 bits (81), Expect = 0.006
Identities = 7/34 (20%), Positives = 16/34 (47%), Gaps = 12/34 (35%)
Query: 267 EQDSEKKLDST---YHCPQASRLHILHMDPSIAV 297
E+ + KKL ++ Y ++ P++A+
Sbjct: 18 EKQALKKLQASLKLY-ADDSA--------PALAI 42
>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 = 29.8 bits (66), Expect = 1.4
Identities = 18/154 (11%), Positives = 46/154 (29%), Gaps = 31/154 (20%)
Query: 71 WNVNSKEEAYLKILKMFEDRRTAPYSIHQI------ALTGASEGKAVGE----------- 113
+ + Y IL +FED + + L+ +
Sbjct: 9 FETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLF 68
Query: 114 WF----GPNTVAQVLRKLAKYD-DWSSIVFHV-----ALDNTLVVNQVKKLCTTNKRASS 163
W V + + ++ + + + ++ + + Q +L N+ +
Sbjct: 69 WTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAK 128
Query: 164 NPQWQPLVLVIPLRLGIQDINP---VYINGIKKC 194
+ + LR + ++ P V I+G+
Sbjct: 129 YNVSRL-QPYLKLRQALLELRPAKNVLIDGVLGS 161
>1t7l_A 5-methyltetrahydropteroyltriglutamate-- homocysteine
methyltransferase; TIM barrel, methyltetrahydrofolate,
zinc; 2.00A {Thermotoga maritima} PDB: 3bq5_A 3bq6_A
1xdj_A 1xr2_A* 1xpg_A*
Length = 766
Score = 29.0 bits (65), Expect = 2.2
Identities = 6/35 (17%), Positives = 14/35 (40%), Gaps = 2/35 (5%)
Query: 4 ANKLSHQDLEQIRRDITSRLWFTYRKG--FVPIGD 36
K++ + E+ + + YRK +P +
Sbjct: 58 KGKITEEQFEEEMNKLRMYMVENYRKNVDVIPSNE 92
>3erv_A Putative C39-like peptidase; structural genomics, unknown function,
PSI-2, protein structure initiative; 2.10A {Bacillus
anthracis}
Length = 236
Score = 27.4 bits (60), Expect = 4.7
Identities = 16/69 (23%), Positives = 26/69 (37%), Gaps = 5/69 (7%)
Query: 201 PVYDMVKILSSTYNMQTPRYEFTFPQSLGVIGGKPN-HALYFIGYVGNDVIFLDPHTNQN 259
PV V I ++T+ T+ + G + N H + IGY V DP +
Sbjct: 144 PV---VIITNATFAPLDEDEFTTWETNNGDVSITYNEHCVVLIGYDQESVYIRDPLKDSL 200
Query: 260 IGCVYDKEQ 268
+E+
Sbjct: 201 DV-KVPREK 208
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
0.321 0.137 0.428
Gapped
Lambda K H
0.267 0.0745 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,761,621
Number of extensions: 272825
Number of successful extensions: 568
Number of sequences better than 10.0: 1
Number of HSP's gapped: 560
Number of HSP's successfully gapped: 13
Length of query: 309
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 216
Effective length of database: 4,105,140
Effective search space: 886710240
Effective search space used: 886710240
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 (21.9 bits)
S2: 57 (25.7 bits)