RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 024560
(266 letters)
>3pff_A ATP-citrate synthase; phosphohistidine, organic acid, ATP-grAsp,
lyase, transferas; HET: TLA ADP; 2.30A {Homo sapiens}
Length = 829
Score = 383 bits (984), Expect = e-128
Identities = 122/263 (46%), Positives = 168/263 (63%)
Query: 4 DACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGELDD 63
D L+ P + + + FI G+F ++DL F+++E+NP + Y LD+ ++D
Sbjct: 164 DIKKHLLVHAPEDKKEILASFISGLFNFYEDLYFTYLEINPLVVTKDGVYVLDLAAKVDA 223
Query: 64 TAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGG 123
TA + KW +IEFP PFGR E++I LD K+ ASLK T+LNPKGRIWTMVAGGG
Sbjct: 224 TADYICKVKWGDIEFPPPFGREAYPEEAYIADLDAKSGASLKLTLLNPKGRIWTMVAGGG 283
Query: 124 ASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGG 183
ASV+Y+DT+ DLG +EL NY EYSGAP+E++ YA+ ++ T + + L+IGG
Sbjct: 284 ASVVYSDTICDLGGVNELANYGEYSGAPSEQQTYDYAKTILSLMTREKHPDGKILIIGGS 343
Query: 184 IANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLE 243
IANFT+VA TF GI+RA+R+ + LK + IFVRRGGPNYQ GL M +G+ GIP+
Sbjct: 344 IANFTNVAATFKGIVRAIRDYQGPLKEHEVTIFVRRGGPNYQEGLRVMGEVGKTTGIPIH 403
Query: 244 VYGPEATMTGICKQAIDCIMSAS 266
V+G E MT I A+ +
Sbjct: 404 VFGTETHMTAIVGMALGHRPIPN 426
>3mwd_A ATP-citrate synthase; ATP-grAsp, phosphohistidine, organic acid,
lyase, transferas; HET: CIT; 2.10A {Homo sapiens} PDB:
3mwe_A*
Length = 425
Score = 319 bits (821), Expect = e-109
Identities = 122/257 (47%), Positives = 167/257 (64%)
Query: 4 DACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGELDD 63
D L+ P + + + FI G+F ++DL F+++E+NP + Y LD+ ++D
Sbjct: 164 DIKKHLLVHAPEDKKEILASFISGLFNFYEDLYFTYLEINPLVVTKDGVYVLDLAAKVDA 223
Query: 64 TAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGG 123
TA + KW +IEFP PFGR E++I LD K+ ASLK T+LNPKGRIWTMVAGGG
Sbjct: 224 TADYICKVKWGDIEFPPPFGREAYPEEAYIADLDAKSGASLKLTLLNPKGRIWTMVAGGG 283
Query: 124 ASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGG 183
ASV+Y+DT+ DLG +EL NY EYSGAP+E++ YA+ ++ T + + L+IGG
Sbjct: 284 ASVVYSDTICDLGGVNELANYGEYSGAPSEQQTYDYAKTILSLMTREKHPDGKILIIGGS 343
Query: 184 IANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLE 243
IANFT+VA TF GI+RA+R+ + LK + IFVRRGGPNYQ GL M +G+ GIP+
Sbjct: 344 IANFTNVAATFKGIVRAIRDYQGPLKEHEVTIFVRRGGPNYQEGLRVMGEVGKTTGIPIH 403
Query: 244 VYGPEATMTGICKQAID 260
V+G E MT I A+
Sbjct: 404 VFGTETHMTAIVGMALG 420
>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 = 43.9 bits (103), Expect = 4e-05
Identities = 42/235 (17%), Positives = 61/235 (25%), Gaps = 110/235 (46%)
Query: 31 VFQDLDFSFIEMNPFTLVNGEPYPLDMRGELDDT------------AAFKNFKKWANIEF 78
+F++++ F E +G L T AAF++ K I
Sbjct: 1706 IFKEINEHSTSYT-F---RSE------KGLLSATQFTQPALTLMEKAAFEDLKSKGLIPA 1755
Query: 79 PLPF-GRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGA-SVIYADTV---- 132
F G HSL E + L + S+ V
Sbjct: 1756 DATFAG----------HSLGE-------YAAL---------ASLADVMSI--ESLVEVVF 1787
Query: 133 --GDLGY----ASELG--NYAEYSGAPN------EEEVLQYARVVIDCATADPDGRKRAL 178
G ELG NY + P +E LQY V++
Sbjct: 1788 YRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQY---VVERVGKR-------- 1836
Query: 179 LIGGG---IANFTDVATTFN---------GIIRALRE--------KESKLKAARM 213
G I N +N G +RAL K K+ +
Sbjct: 1837 --TGWLVEIVN-------YNVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIEL 1882
Score = 33.1 bits (75), Expect = 0.11
Identities = 23/123 (18%), Positives = 39/123 (31%), Gaps = 28/123 (22%)
Query: 31 VFQDLDFSFIEMNPFTL-------VNGEPYPLDMRGELDDTAAFKNFKKWANIEFPLPFG 83
+ +DL + + N + +G D+R L + + + I P+ +
Sbjct: 439 INKDLVKNNVSFNAKDIQIPVYDTFDGS----DLR-VLSGSISERIVD--CIIRLPVKWE 491
Query: 84 RVLSSTESFIHSLD---EKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASE 140
+ H LD S T N G G VI A T+ D+ +
Sbjct: 492 TTTQFKAT--HILDFGPGGASGLGVLTHRNKDGT--------GVRVIVAGTL-DINPDDD 540
Query: 141 LGN 143
G
Sbjct: 541 YGF 543
Score = 31.9 bits (72), Expect = 0.24
Identities = 42/249 (16%), Positives = 61/249 (24%), Gaps = 119/249 (47%)
Query: 44 PFTLVNGEPYPLDMRGELDDTAAFKNFKKWANIE--FPLP-----FGRVLSSTESFIHSL 96
P TL +G ++E +P L E F L
Sbjct: 8 PLTLSHG------------------------SLEHVLLVPTASFFIASQLQ--EQFNKIL 41
Query: 97 ----------DEKTS-ASL--KFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGN 143
DE T+ A L KF LGY S L
Sbjct: 42 PEPTEGFAADDEPTTPAELVGKF----------------------------LGYVSSL-- 71
Query: 144 YAEYSGAPNEEEVLQYARVVIDC---------------ATADPDGRKRALLIGGGIANFT 188
E S ++VL + + A + + I N+
Sbjct: 72 -VEPSKVGQFDQVL---NLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYI 127
Query: 189 DVATTFN---------GIIRALREKESKLKAARMHIFVRRGGP-NYQTGLAKMRALGEEL 238
+ RA+ E ++L A IF GG N ++R L
Sbjct: 128 TARIMAKRPFDKKSNSALFRAVGEGNAQLVA----IF---GGQGNTDDYFEELRDLY--- 177
Query: 239 GIPLEVYGP 247
+ Y
Sbjct: 178 ----QTYHV 182
Score = 27.3 bits (60), Expect = 7.7
Identities = 11/89 (12%), Positives = 18/89 (20%), Gaps = 23/89 (25%)
Query: 171 PDGRK-RALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPN---YQT 226
G++ R D I + + E + F T
Sbjct: 1679 EKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSY------TF---RSEKGLLSAT 1729
Query: 227 ----------GLAKMRALGEELGIPLEVY 245
A L + IP +
Sbjct: 1730 QFTQPALTLMEKAAFEDLKSKGLIPADAT 1758
>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 = 43.3 bits (101), Expect = 5e-05
Identities = 17/100 (17%), Positives = 39/100 (39%), Gaps = 13/100 (13%)
Query: 29 FAVFQD--LDFSFIEMNPFTLVNGEPYPLDMRGELDDTAA-FKNFKKWANIEFPLPFGRV 85
+F+ LDF F+E + + + G + +T K +K + P + R+
Sbjct: 490 MTLFRMVFLDFRFLEQK----IRHDSTAWNASGSILNTLQQLKFYKPYICDNDPK-YERL 544
Query: 86 LSSTESFIHSLDEKTSAS-----LKFTVLNPKGRIWTMVA 120
+++ F+ ++E S L+ ++ I+
Sbjct: 545 VNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEEAH 584
>3ufx_B Succinyl-COA synthetase beta subunit; ATP-grAsp fold, ligase; HET:
GDP; 2.35A {Thermus aquaticus}
Length = 397
Score = 33.6 bits (78), Expect = 0.052
Identities = 13/50 (26%), Positives = 26/50 (52%), Gaps = 1/50 (2%)
Query: 20 KIGDFIMGVFAVFQDLDFSFIEMNPFTLV-NGEPYPLDMRGELDDTAAFK 68
K+ ++ ++ ++ +D S E+NP + +G D + LDD A F+
Sbjct: 167 KLAQVLVALYRAYEGVDASIAEINPLVVTTDGGIVAADAKIVLDDNALFR 216
>2fp4_B Succinyl-COA ligase [GDP-forming] beta-chain, mitochondrial; active
site phosphohistidine residue; HET: NEP GTP; 2.08A {Sus
scrofa} SCOP: c.23.4.1 d.142.1.4 PDB: 2fpg_B* 2fpi_B*
2fpp_B* 1euc_B* 1eud_B*
Length = 395
Score = 32.5 bits (75), Expect = 0.14
Identities = 14/57 (24%), Positives = 26/57 (45%), Gaps = 1/57 (1%)
Query: 13 LPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLV-NGEPYPLDMRGELDDTAAFK 68
+ + D I ++ +F +D + +E+NPF G+ D + DD A F+
Sbjct: 176 FLGPLQNQAADQIKKLYNLFLKIDATQVEVNPFGETPEGQVVCFDAKINFDDNAEFR 232
>2nu8_B SCS-beta, succinyl-COA synthetase beta chain; citric acid cycle,
heterotetramer, ligase, ATP-grAsp fold, R fold; HET:
COA; 2.15A {Escherichia coli} SCOP: c.23.4.1 d.142.1.4
PDB: 1scu_B* 2nu6_B* 1jkj_B* 2nu7_B* 2nu9_B* 2nua_B*
2scu_B* 1jll_B* 1cqj_B* 1cqi_B*
Length = 388
Score = 32.1 bits (74), Expect = 0.15
Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 1/56 (1%)
Query: 13 LPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLV-NGEPYPLDMRGELDDTAAF 67
L + + MG+ +F + D + IE+NP + G+ LD + D A F
Sbjct: 169 LEGKLVQQFTKIFMGLATIFLERDLALIEINPLVITKQGDLICLDGKLGADGNALF 224
>3iyl_A Outer capsid VP4; non-enveloped virus, membrane penetration
protein, autocleav myristol group, icosahedral virus;
HET: MYR; 3.30A {Grass carp reovirus} PDB: 3k1q_I
Length = 648
Score = 29.8 bits (66), Expect = 1.1
Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 8/58 (13%)
Query: 91 SFIHSLDEKTSA----SLKFTVLNPKGRIWTMVAGGGAS----VIYADTVGDLGYASE 140
SF + D ++A LK VLNP G++W V A+ I +D G + +E
Sbjct: 19 SFTPTSDMTSTAAPAIDLKPGVLNPTGKLWRPVGTSVATIDSLAIVSDRFGQYSFVNE 76
>1wvf_A 4-cresol dehydrogenase [hydroxylating] flavoprote subunit;
flavoprotein, electron-transfer, FAD, oxidoreductase;
HET: FAD; 1.30A {Pseudomonas putida} SCOP: d.58.32.1
d.145.1.1 PDB: 1wve_A* 1dii_A* 1diq_A*
Length = 520
Score = 28.1 bits (63), Expect = 3.3
Identities = 11/56 (19%), Positives = 20/56 (35%), Gaps = 12/56 (21%)
Query: 213 MHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPE--ATMTGICKQAID--CIMS 264
+ F + G Y+ + + YGP I K+A+D I++
Sbjct: 461 LDEFEKEGYAVYRVNTRFQDRVAQS-------YGPVKRKLEHAI-KRAVDPNNILA 508
>4af8_A Metacaspase MCA2; hydrolase, cysteine peptidase, caspase/hemoglobin
fold; 1.40A {Trypanosoma brucei} PDB: 4afp_A 4afv_A
4afr_A
Length = 367
Score = 27.6 bits (60), Expect = 4.7
Identities = 8/15 (53%), Positives = 8/15 (53%)
Query: 167 ATADPDGRKRALLIG 181
AT P RAL IG
Sbjct: 85 ATPLPGQTVRALFIG 99
>1lqt_A FPRA; NADP+ derivative, oxidoreductase, structural G PSI, protein
structure initiative, TB structural genomics consortium,
TBSGC; HET: FAD ODP; 1.05A {Mycobacterium tuberculosis}
SCOP: c.3.1.1 c.4.1.1 PDB: 1lqu_A* 2c7g_A*
Length = 456
Score = 27.5 bits (61), Expect = 5.7
Identities = 16/103 (15%), Positives = 28/103 (27%), Gaps = 9/103 (8%)
Query: 155 EVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALR---------EKE 205
+ + + PD ++ G DVA L E
Sbjct: 127 DFVGWYNAHPHFEQVSPDLSGARAVVIGNGNVALDVARILLTDPDVLARTDIADHALESL 186
Query: 206 SKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPE 248
+ I RRG ++R L + G+ + + E
Sbjct: 187 RPRGIQEVVIVGRRGPLQAAFTTLELRELADLDGVDVVIDPAE 229
>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 = 26.5 bits (57), Expect = 7.2
Identities = 8/38 (21%), Positives = 18/38 (47%), Gaps = 10/38 (26%)
Query: 199 RALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGE 236
+AL++ ++ LK ++ + LA ++A E
Sbjct: 20 QALKKLQASLK-----LY----ADDSAPALA-IKATME 47
>1vdh_A Muconolactone isomerase-like protein; beta barrel, structural
genomics, riken structural genomics/proteomics
initiative, RSGI; 2.00A {Thermus thermophilus} SCOP:
d.58.4.10
Length = 249
Score = 26.5 bits (58), Expect = 9.8
Identities = 12/58 (20%), Positives = 19/58 (32%), Gaps = 7/58 (12%)
Query: 183 GIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGI 240
G+ F++ F I+ +R E GP + AL LG+
Sbjct: 199 GVDLFSEDPVQFKKIVYEMRFDE-----VSAR--YGEFGPFFVGKYLDEEALRAFLGL 249
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 0.138 0.411
Gapped
Lambda K H
0.267 0.0431 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,293,655
Number of extensions: 276552
Number of successful extensions: 767
Number of sequences better than 10.0: 1
Number of HSP's gapped: 767
Number of HSP's successfully gapped: 24
Length of query: 266
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 174
Effective length of database: 4,133,061
Effective search space: 719152614
Effective search space used: 719152614
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 (21.8 bits)
S2: 56 (26.1 bits)