RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7709
(336 letters)
>3vqi_A ATG5; autophagy, E3-like, ubiquitin-fold, PRE-autoph structure,
protein turnover, protein transport; HET: EPE; 2.50A
{Kluyveromyces marxianus}
Length = 274
Score = 227 bits (580), Expect = 2e-73
Identities = 45/299 (15%), Positives = 103/299 (34%), Gaps = 44/299 (14%)
Query: 49 DREVLREVWDGKLPVCFTLLADQV--STVGEPDPSYLMVPRLSYFPLVLEKSYPFVGIGT 106
E+ VW+G + V + V +T ++++ R +Y L
Sbjct: 4 MEELRERVWNGTINVEVVVSDAIVVPNTTLADKSCHIVMLRDAYLGFYLPTVVRK----- 58
Query: 107 THVQHCFTSVIHHAIVNKHPARNFFLSRTEALSQSSGRHYPIGLLYDLHVTDNQ------ 160
I + + F E + YP G+L+DL +
Sbjct: 59 ------LADTIKVPYESDYRNWWF-----EYNGEGVPWEYPCGVLFDLLNKKRKKQGNEL 107
Query: 161 -----LPWNITV-HFDKFPANEILHCPSREAVESHFMSCIKEAD-VLKHRSQIVSNMQKK 213
W + + H DK+P + ++ ++ K+A +L ++ + ++
Sbjct: 108 DDTSLQMWELQLCHGDKYPRGILPLVDGHSQIKDYWRHQWKQACFILNGSAKRIMSLSIP 167
Query: 214 EHNQLWLGLQNDKFDQFWVINKKLMEPGEGGGFKHIPFRCYQGDLPFSQCLVKPITNEGN 273
+ W+ + + F + KL + K +P R + + Q V E
Sbjct: 168 DFENFWVSILSRNRSDFMAVRSKLFSMNK---AKSLPVRVWTSNYAVLQPTVPVTDKEL- 223
Query: 274 PKTLQNLFEEVYPKISIDKCKLNGILVILVHGIAIPLDTPLQWMSEHLSYPDNFLHIVV 332
++ L + + +G+ +++ GI + ++ + + + + D FL++V
Sbjct: 224 --SVAELLDSIKLS-------SDGVKSVIIQGIDVSIEDNIFELYDIFASIDGFLYLVT 273
>2dyo_A Autophagy protein 5; ubiquitin-fold, herix-bundle, protein
turnover/protein turnover complex; 1.97A {Saccharomyces
cerevisiae} PDB: 2dym_A
Length = 297
Score = 201 bits (512), Expect = 5e-63
Identities = 55/350 (15%), Positives = 111/350 (31%), Gaps = 86/350 (24%)
Query: 2 ASDREVLREVWDGKLPVCFTLLADQV--STVGEPDPSYLMVPRYVWILLDREVLREVWDG 59
A ++ + +W+G+L V ++ + + E + VPR
Sbjct: 2 AHMNDIKQLLWNGELNVLVSIDPSFLMKGSPREIAVLRIRVPRE---------------- 45
Query: 60 KLPVCFTLLADQVSTVGEPDPSYLMVPRLSYFPLVLEKSYPFVGIGTTHVQHCFTSVIHH 119
+YL+ +Y PL+ K S +
Sbjct: 46 ---------------------TYLV----NYMPLIWNK---------------IKSFLSF 65
Query: 120 AIVNKHPARNFFLSRTEALSQSSGRHYPIGLLYDLHVTDNQ------------LPWNITV 167
+ +F + +YP+G+L+D + + + +
Sbjct: 66 DPLTDSEKYFWFEHNKTPIPW----NYPVGVLFDCLAGKSATFTTSFENQVKDVLTFLRI 121
Query: 168 HF---DKFPANEILHCPSREAVESHFMSCIKEAD-VLKHRSQIVSNMQKKEHNQLWLGLQ 223
H D P I S+ E + K+ +L S+ + ++ E + W +
Sbjct: 122 HLVMGDSLPPTIIPIASSKTQAEKFWFHQWKQVCFILNGSSKAIMSLSVNEARKFWGSVI 181
Query: 224 NDKFDQFWVINKKLMEPGEGGGFKHIPFRCYQGDLPFSQCLVKP-ITNEGNPKTLQNLFE 282
F F I+ K+ +HIP + + +P I+ G TL+++
Sbjct: 182 TRNFQDFIEISNKISSS----RPRHIPLIIQTSRTSGTFRISQPTISMTGVNPTLKDIEG 237
Query: 283 EVYPKISIDKCKLNGILVILVHGIAIPLDTPLQWMSEHLSYPDNFLHIVV 332
++ ++++ GI IP L + L D FL+I +
Sbjct: 238 DILDVKEGINGND---VMVICQGIEIPWHMLLYDLYSKLRSFDGFLYITL 284
>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 = 35.2 bits (80), Expect = 0.031
Identities = 52/346 (15%), Positives = 84/346 (24%), Gaps = 101/346 (29%)
Query: 7 VLREVWDGKL-----PVCFTLL-------ADQVSTVGEPDPSYLMVPRYVWILLDREVLR 54
VL V + K C LL D +S S + + L EV
Sbjct: 249 VLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHIS---LDHHSMTLTPDEVK- 304
Query: 55 EVWDGKLPVCFTLLADQVSTVGEPDPSYLMVPR--LSYFPLVLEKSYPFVGIGTTHVQHC 112
+LL + P L PR L+ P L
Sbjct: 305 -----------SLLLKYLDC----RPQDL--PREVLTTNPRRL----------------- 330
Query: 113 FTSVIHHAIVNKHPAR-NFF-------LSRT-----EALSQSSGRHY--PIGLL-YDLHV 156
S+I + A + + L+ L + R + + H+
Sbjct: 331 --SII-AESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHI 387
Query: 157 TDNQLP--WN---------ITVHF------DKFPANEILHCPSREAVESHFMSCIKEADV 199
L W + +K P + PS + +K +
Sbjct: 388 PTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSI-----YLELKVKLENE 442
Query: 200 LKHRSQIVSNMQKKEHNQLWLGLQNDKFDQ--FWVINKKLMEPGEGGGFKHIPFRCYQGD 257
IV + + L DQ + I L + D
Sbjct: 443 YALHRSIVDHYNIPKTFDSD-DLIPPYLDQYFYSHIGHHLKNIEHPERMTLFR-MVFL-D 499
Query: 258 LPF-SQCLVKPITNEGNPKTLQNLFEEV--YPKISIDKCKLNGILV 300
F Q + T ++ N +++ Y D LV
Sbjct: 500 FRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLV 545
>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 = 33.1 bits (75), Expect = 0.14
Identities = 61/381 (16%), Positives = 111/381 (29%), Gaps = 150/381 (39%)
Query: 8 LREVWD------GKL-PVCFTLLADQVSTVGEPDPSYLMVPRYVWILLDREVLREVWDGK 60
LR+++ G L L++ + T + + + + L+ +L W
Sbjct: 173 LRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVF---TQG----LN--ILE--W--- 218
Query: 61 LPVCFTLLADQVSTVGEPDPSYLMVPRLSYFPLVLEKSYPFVGIGTTHVQHCFTSVIHHA 120
L + +T PD YL P+ S P +G+ + H+
Sbjct: 219 -------LENPSNT---PDKDYL-----LSIPI----SCPLIGV---------IQLAHYV 250
Query: 121 IVNK----HPA--RNFFLSRTE-----------ALSQSSGRHYPIGLLYDLHVTDNQLPW 163
+ K P R++ T A + S + + V L +
Sbjct: 251 VTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKA-ITV----LFF 305
Query: 164 NITVHF-DKFPANEILHCPS--------REAVESHFMSCIK---EADVLKHRSQIVSNMQ 211
I V + +P + PS E V S M I + V + ++ N
Sbjct: 306 -IGVRCYEAYPNTSL--PPSILEDSLENNEGVPSP-MLSISNLTQEQVQDYVNKT--NSH 359
Query: 212 KKEHNQLWLGLQNDKFDQFWVINKKLMEPGEGGGFKHIPFRCYQGDLPFSQCLVKPITNE 271
Q+ + L N G K+ LV ++
Sbjct: 360 LPAGKQVEISLVN--------------------GAKN---------------LV--VS-- 380
Query: 272 GNPKTLQNL---FEEVYPKISIDKC-------KLNGILVILVHGIAIPLDTPL------- 314
G P++L L + +D+ KL L +A P + L
Sbjct: 381 GPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLP--VASPFHSHLLVPASDL 438
Query: 315 ---QWMSEHLSYPDNFLHIVV 332
+ ++S+ + I V
Sbjct: 439 INKDLVKNNVSFNAKDIQIPV 459
Score = 29.6 bits (66), Expect = 1.8
Identities = 29/163 (17%), Positives = 52/163 (31%), Gaps = 50/163 (30%)
Query: 51 EVLREVWDGKLPVCFTLLADQ--VSTVGEPDPSYLMVPRLSYFPLVLEKSYPFVGIGTTH 108
+ ++VW+ AD T G S L + P + + F G
Sbjct: 1640 KAAQDVWN---------RADNHFKDTYGF---SILDIVI--NNP--VNLTIHFGGEKGKR 1683
Query: 109 VQHCFTSVIHHAIVN-KHPARNFFLSRTEALSQSSGRHYPIGLLYDLHVTDN-QLPWNIT 166
++ ++++I IV+ K F E + + R GLL T Q
Sbjct: 1684 IRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRS-EKGLLSA---TQFTQ------ 1733
Query: 167 VHFDKFPANEILHCPSREAVESHFMSCIKEADVLKHRSQIVSN 209
PA + +E + + LK + I ++
Sbjct: 1734 ------PA--LT------LME---KAAFE---DLKSKGLIPAD 1756
>2plg_A TLL0839 protein; hypothetical, uncharacterized, DUF1821, NYSGXRC,
PSI-2, structural genomics, protein structure
initiative; 2.60A {Synechococcus elongatus} SCOP:
d.198.1.2
Length = 163
Score = 28.2 bits (62), Expect = 2.6
Identities = 13/71 (18%), Positives = 23/71 (32%), Gaps = 12/71 (16%)
Query: 26 QVSTVGEPDPSYLMV-------PRYVWILLDREVLREVWDGKLPVCFTLLADQV-----S 73
V G + +L + P + L R++L W F + +QV
Sbjct: 62 FVQLSGHTEEDFLTIWSPVLPLPVADELALYRKLLTLNWLTTFEAHFAIAEEQVQVVASR 121
Query: 74 TVGEPDPSYLM 84
T+G +
Sbjct: 122 TLGGITAGEIS 132
>2vh3_A Ranasmurfin, RSF-1; LTQ, bisltq, unknown function; HET: DAH TY2;
1.16A {Polypedates leucomystax} PDB: 2vh3_B*
Length = 113
Score = 27.4 bits (60), Expect = 3.1
Identities = 12/40 (30%), Positives = 21/40 (52%)
Query: 270 NEGNPKTLQNLFEEVYPKISIDKCKLNGILVILVHGIAIP 309
+EGNP+ ++ FE+ + ID+ L + + AIP
Sbjct: 72 HEGNPELIEEGFEKFLASLKIDRKALGSLCTLFQKLXAIP 111
>3e0m_A Peptide methionine sulfoxide reductase MSRA/MSRB 1; fusion, msrab,
linker, hinge, cell membrane, membrane, multifunctional
enzyme, oxidoreductase; 2.40A {Streptococcus pneumoniae}
Length = 313
Score = 28.1 bits (63), Expect = 4.1
Identities = 6/34 (17%), Positives = 15/34 (44%)
Query: 112 CFTSVIHHAIVNKHPARNFFLSRTEALSQSSGRH 145
F+ + +++ + + + R E S+S H
Sbjct: 234 SFSRPLSKELIHYYKDLSHGMERIEVRSRSGSAH 267
>1ash_A Hemoglobin (OXY); oxygen storage; HET: HEM; 2.15A {Ascaris suum}
SCOP: a.1.1.2
Length = 150
Score = 27.5 bits (60), Expect = 4.8
Identities = 7/79 (8%), Positives = 27/79 (34%), Gaps = 3/79 (3%)
Query: 168 HFDKFPANEILHCPSREAVESHFM-SCIKEADVLKHRSQIVSNMQK--KEHNQLWLGLQN 224
+++ A ++ + P + +C R + ++ H + + +
Sbjct: 47 SREEYTAEDVQNDPFFAKQGQKILLACHVLCATYDDRETFNAYTRELLDRHARDHVHMPP 106
Query: 225 DKFDQFWVINKKLMEPGEG 243
+ + FW + ++ +
Sbjct: 107 EVWTDFWKLFEEYLGKKTT 125
>3k4o_A Isopentenyl phosphate kinase; small molecule kinase, ATP-binding,
transferase, methanocald jannaschii, isopentenyl
monophosphate; 2.05A {Methanocaldococcus jannaschii}
PDB: 3k4y_A* 3k52_A* 3k56_A*
Length = 266
Score = 27.5 bits (61), Expect = 6.4
Identities = 9/33 (27%), Positives = 15/33 (45%)
Query: 273 NPKTLQNLFEEVYPKISIDKCKLNGILVILVHG 305
L+ + E+ + K + I +ILVHG
Sbjct: 28 KWDNLERIAMEIKNALDYYKNQNKEIKLILVHG 60
>3kh6_A Poly [ADP-ribose] polymerase 15; macro, PARP, BAL3, B-aggressive
lymphoma protein 3, SGC, structural genomics consortium,
alternative splicing; HET: APR; 2.20A {Homo sapiens}
PDB: 3v2b_A*
Length = 199
Score = 26.9 bits (60), Expect = 7.2
Identities = 8/34 (23%), Positives = 14/34 (41%)
Query: 171 KFPANEILHCPSREAVESHFMSCIKEADVLKHRS 204
I+H P + V S ++E + K+ S
Sbjct: 98 CLKCKIIIHVPGGKDVRKTVTSVLEECEQRKYTS 131
>3hcg_A Peptide methionine sulfoxide reductase MSRA/MSRB; PILB, methionine
sulfoxide reductase B, reduced form, disulfide bond;
1.82A {Neisseria meningitidis serogroup A} PDB: 3hch_A*
1l1d_A
Length = 146
Score = 26.7 bits (60), Expect = 8.1
Identities = 10/33 (30%), Positives = 16/33 (48%)
Query: 113 FTSVIHHAIVNKHPARNFFLSRTEALSQSSGRH 145
FT I V +H ++ + RTE S ++ H
Sbjct: 69 FTRPIDAKSVTEHDDFSYNMRRTEVRSHAADSH 101
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
0.323 0.140 0.446
Gapped
Lambda K H
0.267 0.0537 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,288,742
Number of extensions: 308746
Number of successful extensions: 548
Number of sequences better than 10.0: 1
Number of HSP's gapped: 532
Number of HSP's successfully gapped: 15
Length of query: 336
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 242
Effective length of database: 4,077,219
Effective search space: 986686998
Effective search space used: 986686998
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 (26.2 bits)