RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy510
(380 letters)
>3rrk_A V-type ATPase 116 kDa subunit; alpha beta fold, proton pump,
subunit I/A, V-ATPase, proton; HET: NHE; 2.64A
{Meiothermus ruber}
Length = 357
Score = 146 bits (370), Expect = 6e-41
Identities = 26/210 (12%), Positives = 62/210 (29%), Gaps = 14/210 (6%)
Query: 1 MPAFERMLWRACRGNVFLRQAEIETPLEDINSGDPVYKSVFIIFFQGDQLKTRVMKICEG 60
+ A + L A L +E L + ++ + + R G
Sbjct: 161 LEAVRKALQEALADRFVLEAEPLENQL-----------AALVVVKRSELEAARSSLSRLG 209
Query: 61 FRATLYPCPEAPTDRREMSMGVTTRIEDLNTVIGETQDHRHRVLVAAAKNIKNWFIKVRK 120
+P + + + R + ++ R+ + + + + + +
Sbjct: 210 LAELRFPGAYGAMPLGKAAARMKERARLAPEELVGIREEVARLSRESGEALIALWTRAKD 269
Query: 121 IKAIYHTLNFFNLDVTQKCLIAECWVPVLDIDAIQLALRRGTDRSGSSVPPILNRMDTFE 180
A Y + ++ + WVP ++ AL R D+ + P+ ++
Sbjct: 270 EVARYKAVA--DMAAGKYGAALMGWVPQKAKGKVEEALGRLRDQIVYTFEPVDEHHES-H 326
Query: 181 DPPTYNRTNKFTKAFQALIDAYGVSSYREM 210
P + K F+ L +Y
Sbjct: 327 QVPVTLENPAWAKPFELLHGFLNTPAYGSH 356
Score = 64.0 bits (155), Expect = 2e-11
Identities = 8/62 (12%), Positives = 18/62 (29%), Gaps = 1/62 (1%)
Query: 315 KFTKAFQALIDAYGDRSGSSVPPILNRMDTFEDPPTYNRTNKFTKAFQALIDAYGVSSYR 374
K + + D+ + P+ ++ P + K F+ L +Y
Sbjct: 296 KAKGKVEEALGRLRDQIVYTFEPVDEHHES-HQVPVTLENPAWAKPFELLHGFLNTPAYG 354
Query: 375 EM 376
Sbjct: 355 SH 356
Score = 48.6 bits (115), Expect = 1e-06
Identities = 6/41 (14%), Positives = 13/41 (31%), Gaps = 1/41 (2%)
Query: 288 DRSGSSVPPILNRMDTFEDPPTYNRTNKFTKAFQALIDAYG 328
D+ + P+ ++ P + K F+ L
Sbjct: 310 DQIVYTFEPVDEHHES-HQVPVTLENPAWAKPFELLHGFLN 349
>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 = 49.7 bits (118), Expect = 1e-06
Identities = 31/187 (16%), Positives = 55/187 (29%), Gaps = 48/187 (25%)
Query: 7 MLWRACRGNVFLRQAEIETPLEDINSGDPVYKSVFIIFFQGDQLKTRVMKICEGFRATLY 66
ML + L Q +++ + NS P K V I G + + G +LY
Sbjct: 338 ML--SISN---LTQEQVQDYVNKTNSHLPAGKQVEISLVNGAK-----NLVVSGPPQSLY 387
Query: 67 PCPEAPTDRREMSMGVTTRIEDLNTVIGETQD---HRHRVLVAAAKNIKNWFIKVRKIKA 123
G+ + G Q R L N F+ + +
Sbjct: 388 --------------GLNLTLRKAKAPSGLDQSRIPFSERKLK-----FSNRFL---PVAS 425
Query: 124 IYHT-LNFFNLDVTQKCLIAECWVPVLDIDAIQLAL-----RRGTD-RSGS-SVPPILNR 175
+H+ L L + + + +A + + G+D R S S+ +
Sbjct: 426 PFHSHL----LVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVD 481
Query: 176 MDTFEDP 182
P
Sbjct: 482 C-IIRLP 487
Score = 40.8 bits (95), Expect = 8e-04
Identities = 35/181 (19%), Positives = 64/181 (35%), Gaps = 51/181 (28%)
Query: 2 PAFERMLW-RACRGNVFLRQAEIETPLEDINSGDPVYKSVFIIFFQGDQLKTRVMKICEG 60
A + +W RA + + L DI +PV I F G++ K +I E
Sbjct: 1640 KAA-QDVWNRADN---HFKDTYGFSIL-DIVINNPVNL---TIHFGGEKGK----RIREN 1687
Query: 61 FRATLYPCPEAPTDRREMSMGVTTRI-EDLNTVIGE-----------TQDHRHRVL---- 104
+ A ++ E D + + + I E + TQ L
Sbjct: 1688 YSAMIF---ETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQ----PALTLME 1740
Query: 105 VAAAKNIKNWFIKVRKIKAIY--HTLNFFN-LDVTQKCLIAECWVPVLDI-DAIQLALRR 160
AA +++K+ + A + H+L + L +A+ V+ I +++ R
Sbjct: 1741 KAAFEDLKSKGLIPAD--ATFAGHSLGEYAAL-----ASLAD----VMSIESLVEVVFYR 1789
Query: 161 G 161
G
Sbjct: 1790 G 1790
Score = 36.2 bits (83), Expect = 0.021
Identities = 55/339 (16%), Positives = 102/339 (30%), Gaps = 117/339 (34%)
Query: 17 FLRQAEIETPLEDINSGDPVYKSVFIIFFQGDQLKTRVMKICE--GFRATLYPCPEAPTD 74
+L TP +D P+ S +I QL + + GF P +
Sbjct: 218 WLENPS-NTPDKDYLLSIPI--SCPLIGVI--QL-AHYVVTAKLLGFT---------PGE 262
Query: 75 RREMSMGVTTRIEDLNTVIGETQDHRHRVLVAAAKNIKNWFIKVRKIKAIYHTLNFFNLD 134
R G T + L T V +A + +++F+ VR KAI T+ FF
Sbjct: 263 LRSYLKGATGHSQGLVTA----------VAIAETDSWESFFVSVR--KAI--TVLFF--- 305
Query: 135 VTQKCLI-AECW--VPVLDIDAIQLALRRGTDRSGSSVP-PILN----RMDTFEDPPTYN 186
I C+ P + ++ + + VP P+L+ + +D N
Sbjct: 306 ------IGVRCYEAYPNTSLPP---SILEDSLENNEGVPSPMLSISNLTQEQVQD--YVN 354
Query: 187 RTNKFTKAFQ----ALIDA-------------YGVSS-----------------YREMNP 212
+TN A + +L++ YG++ + E
Sbjct: 355 KTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKL 414
Query: 213 TPYTI---ITFPFLFAVMFGDLGHGAIMFLFAAWMVMKEKPLMTLKTDNEIWKIFFGGRY 269
+ PF H ++ + D + F +
Sbjct: 415 KFSNRFLPVASPF----------HSHLL----------VPASDLINKDLVKNNVSFNAKD 454
Query: 270 IILLMGLFSMYTGLIYNDDRSGS-SVPPILNRMDTFEDP 307
+ + ++ + G +D R S S+ + P
Sbjct: 455 --IQIPVYDTFDG---SDLRVLSGSISERIVDC-IIRLP 487
Score = 32.7 bits (74), Expect = 0.24
Identities = 20/133 (15%), Positives = 37/133 (27%), Gaps = 42/133 (31%)
Query: 11 ACRGNVFLRQAEIETPLEDINSGDPVYKSVFIIFFQGDQLKTRVMKICEGFRATLYPCPE 70
A +V +E V ++F++G + E R+
Sbjct: 1771 ASLADVM--------SIES---------LVEVVFYRG-MTMQVAVPRDELGRSNYGMIAI 1812
Query: 71 APTDRREMSMGVTTRIEDLNTVIGETQDHRHRVLVAAAKNIKNW---------------- 114
P + + E L V+ ++ N++N
Sbjct: 1813 NPG-----RVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTN 1867
Query: 115 ---FIKVRKIKAI 124
FIK++KI I
Sbjct: 1868 VLNFIKLQKIDII 1880
Score = 29.6 bits (66), Expect = 2.0
Identities = 68/415 (16%), Positives = 118/415 (28%), Gaps = 137/415 (33%)
Query: 18 LRQAEIETPLEDINSGDPVYKSVFIIFFQGDQLKTRVMKICEGFRATLYPCP-------E 70
L +E L V + FF QL+ E F L P P +
Sbjct: 11 LSHGSLEHVL-------LVPTA---SFFIASQLQ-------EQFNKIL-PEPTEGFAADD 52
Query: 71 APTDRREMS---MG-VTTRIE--------------------------DLNTVIGETQDHR 100
PT E+ +G V++ +E D++ + +
Sbjct: 53 EPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQEN 112
Query: 101 HRVLVAAAKNIKNWFIKVRKIKAIYHTLNFFNLDVTQKCLIAECWVPVLDIDAI---Q-- 155
LV + IKN+ + L + AI Q
Sbjct: 113 DTTLVKTKELIKNYI-------TARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGN 165
Query: 156 ----LA-LRRGTDRSGSSVPPILNRM-DTFEDPPTYNRTNKFTKAFQALIDAYGVSSYRE 209
LR V ++ +T + T K F ++
Sbjct: 166 TDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIR--TTLDAEKVFTQGLNILEWLENPS 223
Query: 210 MNP-TPYTI---ITFPFL-------FAVMFGDLG--HGAIMFLFAAWMVMKEKPLMTL-- 254
P Y + I+ P + + V LG G + + + +
Sbjct: 224 NTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAI 283
Query: 255 -KTDNEIWKIFFGGRYIILLMGLFSMYTGLIYNDDRS-----GSSVPPILNR--MDTFED 306
+TD+ W+ FF + + LF + G+ R +S+PP + ++ E
Sbjct: 284 AETDS--WESFFVSVRKAITV-LF--FIGV-----RCYEAYPNTSLPPSILEDSLENNEG 333
Query: 307 PPTY----------------NRTNKFTKAFQ----ALIDAYGDR----SGSSVPP 337
P+ N+TN A + +L++ G + SG PP
Sbjct: 334 VPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVN--GAKNLVVSG---PP 383
>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 = 37.1 bits (85), Expect = 0.010
Identities = 54/402 (13%), Positives = 111/402 (27%), Gaps = 110/402 (27%)
Query: 17 FLRQAEIETPLEDI-NSGDPVYKSVFIIFFQGDQLKTRVMKICEGFRATLYP-------- 67
+ + ++ I S D V ++ + + + + V K E Y
Sbjct: 41 MPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKT 100
Query: 68 CPEAPTDRREMSMGVTTRIEDLNTVIGETQDHRHRVLVAAAKNIKNWFIKVRKIKAIYHT 127
P+ M + R+ + N V + + R+ ++ +++R K +
Sbjct: 101 EQRQPSMMTRMYIEQRDRLYNDNQVF--AKYNVSRL--QPYLKLRQALLELRPAKNV--- 153
Query: 128 LNFFNLDVTQ------K-CLIAECWVPVLDIDAIQLA-------LRRGTDRSGSSVPPIL 173
+ K + + V +Q L S +V +L
Sbjct: 154 -------LIDGVLGSGKTWVALD----VCLSYKVQCKMDFKIFWLNLKNCNSPETVLEML 202
Query: 174 NRMDTFEDPPTYNRTNKFTKAFQALIDAYGVSSYREMNPTPYTIITFPFLFAVMFGDLGH 233
++ DP + + D + I
Sbjct: 203 QKLLYQIDPN-----------WTSRSDH--------SSNIKLRI------------HSIQ 231
Query: 234 GAIMFLFAAWMVMKEKPLMTLKTDN----EIWKIFFGG-------RYIILLMGLFSMYTG 282
+ L + E L+ L N + W F R+ + L + T
Sbjct: 232 AELRRLLKSKP--YENCLLVL--LNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTT 287
Query: 283 LIYNDDRSGSSVPP--------ILNRMDTFEDPPTYNRTNKFTKAFQALIDAYGDRSGSS 334
I D S + P L+ + P TN ++I S
Sbjct: 288 HISLDHHSMTLTPDEVKSLLLKYLD-CRPQDLPREVLTTNPRR---LSII-------AES 336
Query: 335 VPPILNRMDTFEDPPTYNRTNKFTKAFQALIDAYGVSSYREM 376
+ L D ++ + +K T ++ ++ + YR+M
Sbjct: 337 IRDGLATWDNWK----HVNCDKLTTIIESSLNVLEPAEYRKM 374
Score = 32.1 bits (72), Expect = 0.31
Identities = 44/284 (15%), Positives = 89/284 (31%), Gaps = 85/284 (29%)
Query: 92 VIGE-TQDHRHRVLVAAAKNIKNW----FIKVRKI-------------KAIYHTLNFFNL 133
+I E +D NW K+ I + ++ L+ F
Sbjct: 332 IIAESIRDGLAT--------WDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPP 383
Query: 134 DV--TQKCLIAECWVPVLDIDAIQLA--------LRRGTDRSGSSVPPILNRMD-TFEDP 182
L++ W V+ D + + + + S S+P I + E+
Sbjct: 384 SAHIPTI-LLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENE 442
Query: 183 PTYNRTNKFTKAFQALIDAYGV-SSYREMNPTPYTIITFPFLFAVMFGDLGH-------G 234
+R+ ++D Y + ++ + P P+L + +GH
Sbjct: 443 YALHRS---------IVDHYNIPKTFDSDDLIP------PYLDQYFYSHIGHHLKNIEHP 487
Query: 235 AIMFLFAAWMV----MKEKPLMTLKTDNEIWKIFFGGRYIILLMGLFSMYTGLIYNDDRS 290
M LF + +++K ++ D+ W I+ + Y I ++D
Sbjct: 488 ERMTLFRMVFLDFRFLEQK----IRHDSTAWN---ASGSILNTLQQLKFYKPYICDND-- 538
Query: 291 GSSVPPILNRM-DTFED-PPTYNRT---NKFTKAFQ-ALIDAYG 328
P R+ + D P +K+T + AL+
Sbjct: 539 -----PKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDE 577
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 30.1 bits (67), Expect = 0.91
Identities = 12/59 (20%), Positives = 23/59 (38%), Gaps = 10/59 (16%)
Query: 69 PEAPTDRREMSMGVTTRIEDLNTVIGETQDHRHRVLVAAAKNIKNWFI----KVRKIKA 123
PE+ RE R+++L+ ++ A K+++ W +V K K
Sbjct: 84 PESIRKWREEQR---KRLQELDA---ASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKI 136
>2dsk_A Chitinase; catalytic domain, active domain, crystalline CHIT
barrel, hydrolase; 1.50A {Pyrococcus furiosus} PDB:
3a4w_A* 3a4x_A* 3afb_A
Length = 311
Score = 28.5 bits (63), Expect = 4.1
Identities = 7/59 (11%), Positives = 14/59 (23%), Gaps = 11/59 (18%)
Query: 314 NKFTKAFQALIDAYGDRSGSSVPPILNRMD-TFEDPPTYNRTNKFTKAFQALIDAYGVS 371
+ + + +ID Y +D E ++ Q S
Sbjct: 97 EQLAEWYIKVIDTYN----------ATYLDFDIEAGIDADKLADALLIVQRERPWVKFS 145
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
0.324 0.139 0.428
Gapped
Lambda K H
0.267 0.0506 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,079,231
Number of extensions: 369204
Number of successful extensions: 848
Number of sequences better than 10.0: 1
Number of HSP's gapped: 841
Number of HSP's successfully gapped: 17
Length of query: 380
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 285
Effective length of database: 4,049,298
Effective search space: 1154049930
Effective search space used: 1154049930
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 58 (26.6 bits)