RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 022648
(294 letters)
>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 = 272 bits (699), Expect = 3e-90
Identities = 87/207 (42%), Positives = 126/207 (60%), Gaps = 3/207 (1%)
Query: 28 LNIHEYQGAELMAKYGINVPKGLAVASVDEVKKAIQDAFPDHKELVVKSQILAGGRGLGT 87
+N+ EYQ +LM+ G+ V + + +E +A + + KE+V+K+QILAGGRG G
Sbjct: 1 MNLQEYQSKKLMSDNGVKVQRFFVADTANEALEAAKRL--NAKEIVLKAQILAGGRGKGV 58
Query: 88 FKSGLKGGVHIVK-KEEVEDLAGKMLGQILVTKQTGPQGKIVSKVYLCEKLSLVNEMYFA 146
F SGLKGGVH+ K E V LA +M+G L TKQT +G V+KV + E L + E Y A
Sbjct: 59 FSSGLKGGVHLTKDPEVVGQLAKQMIGYNLATKQTPKEGVKVNKVMVAEALDISRETYLA 118
Query: 147 IMLDRKTAGPIIIGCSKGGTSIEDLAEKYPNMIVKVPIDVFNGITDEDAAKVVDGLAPKV 206
I++DR GP+++G +GG IE++A P +I K ID+ GI D A ++ + L
Sbjct: 119 ILMDRSCNGPVLVGSPQGGVDIEEVAASNPELIFKEQIDIIEGIKDSQAQRMAENLGFLG 178
Query: 207 ADRNDAIEQVKKLYKLFCESDCTLLEV 233
+N A +Q+KKLY LF + D T +EV
Sbjct: 179 PLQNQAADQIKKLYNLFLKIDATQVEV 205
>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 = 250 bits (640), Expect = 2e-81
Identities = 62/207 (29%), Positives = 101/207 (48%), Gaps = 10/207 (4%)
Query: 28 LNIHEYQGAELMAKYGINVPKGLAVASVDEVKKAIQDAFPDHKELVVKSQILAGGRGLGT 87
+N+HEYQ +L A+YG+ P G A + E ++A VVK Q+ AGGRG
Sbjct: 1 MNLHEYQAKQLFARYGLPAPVGYACTTPREAEEAASKI--GAGPWVVKCQVHAGGRGKA- 57
Query: 88 FKSGLKGGVHIVK-KEEVEDLAGKMLGQILVTKQTGPQGKIVSKVYLCEKLSLVNEMYFA 146
GGV +V KE++ A LG+ LVT QT G+ V+++ + + E+Y
Sbjct: 58 ------GGVKVVNSKEDIRAFAENWLGKRLVTYQTDANGQPVNQILVEAATDIAKELYLG 111
Query: 147 IMLDRKTAGPIIIGCSKGGTSIEDLAEKYPNMIVKVPIDVFNGITDEDAAKVVDGLAPKV 206
++DR + + + ++GG IE +AE+ P++I KV +D G ++ L +
Sbjct: 112 AVVDRSSRRVVFMASTEGGVEIEKVAEETPHLIHKVALDPLTGPMPYQGRELAFKLGLEG 171
Query: 207 ADRNDAIEQVKKLYKLFCESDCTLLEV 233
+ L +F E D L+E+
Sbjct: 172 KLVQQFTKIFMGLATIFLERDLALIEI 198
>3ufx_B Succinyl-COA synthetase beta subunit; ATP-grAsp fold, ligase; HET:
GDP; 2.35A {Thermus aquaticus}
Length = 397
Score = 195 bits (498), Expect = 4e-60
Identities = 57/206 (27%), Positives = 101/206 (49%), Gaps = 19/206 (9%)
Query: 29 NIHEYQGAELMAKYGINVPKGLAVASVDEVKKAIQDAFPDHKELVVKSQILAGGRGLGTF 88
N+HEYQ E++A+YG+ VP G + +E K+ ++ K +V+K+Q+ GGRG
Sbjct: 2 NLHEYQAKEILARYGVPVPPGKVAYTPEEAKRIAEEF---GKRVVIKAQVHVGGRGKA-- 56
Query: 89 KSGLKGGVHIVK-KEEVEDLAGKMLGQILVTKQTGPQGKIVSKVYLCEKLSLVNEMYFAI 147
GGV + +E + A +LG + +G V KV + E + + E Y +
Sbjct: 57 -----GGVKLADTPQEAYEKAQAILGMNI-------KGLTVKKVLVAEAVDIAKEYYAGL 104
Query: 148 MLDRKTAGPIIIGCSKGGTSIEDLAEKYPNMIVKVPIDVFNGITDEDAAKVVDGLAPKVA 207
+LDR +++ +GG IE++A + P I K ID G +A ++V +
Sbjct: 105 ILDRAKKRVVLMLSKEGGVDIEEVAAERPEAIHKFWIDPHKGFRPFEAREMVKRAGLE-G 163
Query: 208 DRNDAIEQVKKLYKLFCESDCTLLEV 233
+ N + + LY+ + D ++ E+
Sbjct: 164 NLNKLAQVLVALYRAYEGVDASIAEI 189
>3mwd_A ATP-citrate synthase; ATP-grAsp, phosphohistidine, organic acid,
lyase, transferas; HET: CIT; 2.10A {Homo sapiens} PDB:
3mwe_A*
Length = 425
Score = 171 bits (435), Expect = 1e-50
Identities = 41/214 (19%), Positives = 69/214 (32%), Gaps = 27/214 (12%)
Query: 30 IHEYQGAELMAKYGINVPKG------LAVASVDEVKKAIQDA-FPDHKELVVKSQILAGG 82
I E G EL+ K+ V + + +QD + + LVVK L
Sbjct: 6 ISEQTGKELLYKFICTTSAIQNRFKYARVTPDTDWARLLQDHPWLLSQNLVVKPDQLIKR 65
Query: 83 RGLGTFKSGLKGGVHIVK-KEEVEDLAGKMLGQILVTKQTGPQGKIVSKVYLCEKL--SL 139
RG G V + + V+ LGQ G + + + S
Sbjct: 66 RGKL-------GLVGVNLTLDGVKSWLKPRLGQ---EATVGKATGFLKNFLIEPFVPHSQ 115
Query: 140 VNEMYFAIMLDRKTAGPIIIGCSKGGTSIEDLAEKYPNMIVKVPIDVFNGITDEDAAKVV 199
E Y I R G ++ +GG + D+ K ++ V +D D +V
Sbjct: 116 AEEFYVCIYATR--EGDYVLFHHEGGVDVGDVDAKAQKLL--VGVDEKLNPEDIKKHLLV 171
Query: 200 DGLAPKVADRNDAIEQVKKLYKLFCESDCTLLEV 233
+ + L+ + + T LE+
Sbjct: 172 HAPE---DKKEILASFISGLFNFYEDLYFTYLEI 202
>3pff_A ATP-citrate synthase; phosphohistidine, organic acid, ATP-grAsp,
lyase, transferas; HET: TLA ADP; 2.30A {Homo sapiens}
Length = 829
Score = 66.8 bits (163), Expect = 2e-12
Identities = 52/216 (24%), Positives = 79/216 (36%), Gaps = 31/216 (14%)
Query: 30 IHEYQGAELMAKY-----GINVPKGLAVASVDEVKKAIQDAFP--DHKELVVKSQILAGG 82
I E G EL+ K+ I A + D + P + LVVK L
Sbjct: 6 ISEQTGKELLYKFICTTSAIQNRFKYARVTPDTDWARLLQDHPWLLSQNLVVKPDQLIKR 65
Query: 83 RGLGTFKSGLKGGVHIVKK-EEVEDLAGKMLG-QILVTKQTGPQGKIVSKVYLCE---KL 137
RG K GL V + + V+ LG + V K TG K +L E
Sbjct: 66 RG----KLGL---VGVNLTLDGVKSWLKPRLGQEATVGKATGF-----LKNFLIEPFVPH 113
Query: 138 SLVNEMYFAIMLDRKTAGPIIIGCSKGGTSIEDLAEKYPNMIVKVPIDVFNGITDEDAAK 197
S E Y I R+ G ++ +GG + D+ K K+ + V + ED K
Sbjct: 114 SQAEEFYVCIYATRE--GDYVLFHHEGGVDVGDVDAK----AQKLLVGVDEKLNPEDIKK 167
Query: 198 VVDGLAPKVADRNDAIEQVKKLYKLFCESDCTLLEV 233
+ AP+ + + L+ + + T LE+
Sbjct: 168 HLLVHAPE-DKKEILASFISGLFNFYEDLYFTYLEI 202
>4dim_A Phosphoribosylglycinamide synthetase; structural genomics,
PSI-biology, midwest center for structu genomics, MCSG,
ligase; 2.61A {Anaerococcus prevotii}
Length = 403
Score = 41.2 bits (97), Expect = 3e-04
Identities = 14/49 (28%), Positives = 26/49 (53%), Gaps = 5/49 (10%)
Query: 37 ELMAKYGINVPKGLAVASVDEVKKAIQDA-FPDHKELVVKSQILAGGRG 84
E KY +N + V + +E+K A+++ P ++VK+ L G +G
Sbjct: 115 EAFKKYNVNTARHFVVRNENELKNALENLKLP----VIVKATDLQGSKG 159
>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 = 38.5 bits (89), Expect = 0.003
Identities = 37/222 (16%), Positives = 69/222 (31%), Gaps = 84/222 (37%)
Query: 50 LAVASVDE-------VKKAI----------QDAFPDHK-ELVVKSQILAGGRGLGTFKSG 91
+A+A D V+KAI +A+P+ + L G+ +
Sbjct: 281 VAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLS 340
Query: 92 LKGGVHIVKKEEVEDLAGKMLGQILVTKQTGPQGKIVSKVYLCEKLSLVN---------- 141
+ + +E+V+D K T P GK V +SLVN
Sbjct: 341 ISN----LTQEQVQDYVNK-------TNSHLPAGKQVE-------ISLVNGAKNLVVSGP 382
Query: 142 --EMY-FAIMLDRKTAGPIIIGCSKGGTS-----------------------------IE 169
+Y + L RK P + S+ S +
Sbjct: 383 PQSLYGLNLTL-RKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINK 441
Query: 170 DLAEK---YPNMIVKVPIDVFNGITDEDAAKVVDGLAPKVAD 208
DL + + +++P V++ D + ++ ++ D
Sbjct: 442 DLVKNNVSFNAKDIQIP--VYDTFDGSDLRVLSGSISERIVD 481
Score = 37.0 bits (85), Expect = 0.008
Identities = 47/293 (16%), Positives = 81/293 (27%), Gaps = 105/293 (35%)
Query: 34 QGAEL--MAK--YGINVPKGLAVASV-DEVKKAIQDAF-----------PDHKELVV--- 74
QG++ M Y A V + +D + P L +
Sbjct: 1624 QGSQEQGMGMDLYK-TSK---AAQDVWNRADNHFKDTYGFSILDIVINNP--VNLTIHFG 1677
Query: 75 --KSQILAGGRGLGTFKSGLKGGVHIVK--KEEVEDLAGKMLGQILVTKQTGPQGKIVSK 130
K + + F++ + G + K KE E +G +
Sbjct: 1678 GEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFR--------SEKGLL--- 1726
Query: 131 VYLCEK----LSLVNEMYFAIMLDRKTAGPII---------IG-----CSKGGT-SIEDL 171
+ L+L+ + F + K+ G I +G S SIE L
Sbjct: 1727 -SATQFTQPALTLMEKAAFEDL---KSKGLIPADATFAGHSLGEYAALASLADVMSIESL 1782
Query: 172 AE--KY---------PN---------MIVKVPIDVFNGITDEDAAKVVDGLAPK------ 205
E Y P MI P V + E VV+ + +
Sbjct: 1783 VEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVE 1842
Query: 206 VADRNDAIEQV------KKLYKLFCESDCTLLEV--SMNFYISLV-LLICMSL 249
+ + N +Q + L + +L I ++ L +SL
Sbjct: 1843 IVNYNVENQQYVAAGDLRALDTV-----TNVLNFIKLQK--IDIIELQKSLSL 1888
>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 = 36.4 bits (83), Expect = 0.013
Identities = 41/225 (18%), Positives = 76/225 (33%), Gaps = 54/225 (24%)
Query: 98 IVKKEEVEDLAG--------KMLGQILVTKQTGPQGKIVSKV------YLCEKL------ 137
I+ KEE++ + L L++KQ K V +V +L +
Sbjct: 45 ILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQ 104
Query: 138 -SLVNEMYFAIMLDRKTAGPIIIGCSKGGTSIEDLAEKYPNMIVKVPIDVFNGITDEDAA 196
S++ MY DR + +K S K +++ + +
Sbjct: 105 PSMMTRMYIE-QRDRLYNDNQVF--AKYNVSRLQPYLKLRQALLE--LRPAKNV------ 153
Query: 197 KVVDG--------LAPKVADRNDAIEQVKKLYKLF------CESDCTLLEVSMNFYISLV 242
++DG +A V + ++ K +K+F C S T+LE+ +
Sbjct: 154 -LIDGVLGSGKTWVALDVC-LSYKVQC-KMDFKIFWLNLKNCNSPETVLEMLQKLLYQID 210
Query: 243 LLICMSLLVGGQVELVIHLVGGSLCIVLLLLLF--SLVDVL--VW 283
++L IH + L +L + L+ VL V
Sbjct: 211 PNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLL-VLLNVQ 254
Score = 34.4 bits (78), Expect = 0.048
Identities = 43/310 (13%), Positives = 92/310 (29%), Gaps = 111/310 (35%)
Query: 7 NKLVSRSLTVAGQWQ-QQQLRRLNIHEYQGAELMAKYGINVPKG-----------LAVAS 54
K V+ L+ A + + + L+ KY ++ ++
Sbjct: 274 FKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKY-LDCRPQDLPREVLTTNPRRLSI 332
Query: 55 V-------------------DEVKKAIQDAF-----PDHKELVVKSQILAGGRGLGTFKS 90
+ D++ I+ + +++++ + L F
Sbjct: 333 IAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDR---------LSVFPP 383
Query: 91 GLKGGVHI-----------VKKEEVEDLAGKMLGQILVTKQTGPQGKIVS--KVYLCEKL 137
HI V K +V + K+ LV KQ P+ +S +YL K+
Sbjct: 384 S----AHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQ--PKESTISIPSIYLELKV 437
Query: 138 SLVNEMYFAIMLDRKTAGPIIIGCSKGGTSIEDLAEKY-PNMIVKVPID--VFNGI---- 190
L NE L R I+ + + + + ++ +D ++ I
Sbjct: 438 KLENEYA----LHRS-----IVDHYN-------IPKTFDSDDLIPPYLDQYFYSHIGHHL 481
Query: 191 -----TDEDA-------------AKVV-DGLA-PKVADRNDAIEQVKKLYKLFCESDCT- 229
+ K+ D A + ++Q+K C++D
Sbjct: 482 KNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKY 541
Query: 230 --LLEVSMNF 237
L+ ++F
Sbjct: 542 ERLVNAILDF 551
Score = 33.7 bits (76), Expect = 0.085
Identities = 38/223 (17%), Positives = 63/223 (28%), Gaps = 62/223 (27%)
Query: 2 VRGLLNKLVSRSLTVAGQWQQQQLRRLNIHEYQGAELMAKYGINVPKGLAVASVDEVKKA 61
V ++NKL SL V Q ++ + I E+K
Sbjct: 404 VMVVVNKLHKYSL-VEKQPKESTIS---IPSIY---------------------LELKVK 438
Query: 62 IQDAFPDHKELVVKSQILAGGRGLGTFKSGLKG------GVHIVKKEEVED--------- 106
+++ + H+ +V I L G H+ E E
Sbjct: 439 LENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFL 498
Query: 107 ----LAGKMLGQILVTKQTGPQGKIVS-----KVYLCEKLSLVNEMYFAIMLDRKTAGPI 157
L K+ +G + K Y+C+ + AI+
Sbjct: 499 DFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEEN 558
Query: 158 IIGCSKGGTSIEDLAEKYPNMIVKVPIDVFNGITDEDAAKVVD 200
+I CSK T + +A + I E+A K V
Sbjct: 559 LI-CSK-YTDLLRIALMAED----------EAIF-EEAHKQVQ 588
>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 = 34.5 bits (78), Expect = 0.018
Identities = 9/38 (23%), Positives = 20/38 (52%), Gaps = 10/38 (26%)
Query: 21 QQQQLRRLNIHEYQGAELMAKYGIN-VPKGLAV-ASVD 56
++Q L++L Q + + Y + P LA+ A+++
Sbjct: 18 EKQALKKL-----QAS--LKLYADDSAP-ALAIKATME 47
>3ln7_A Glutathione biosynthesis bifunctional protein GSH;
gamma-glutamylcysteine ligase domain, ATP-grAsp domain,
HYBR enzyme, ATP-binding; 3.20A {Pasteurella multocida}
Length = 757
Score = 35.3 bits (81), Expect = 0.025
Identities = 13/56 (23%), Positives = 31/56 (55%), Gaps = 2/56 (3%)
Query: 38 LMAKYGINVPKGLAVASVDEVKKAIQDAFPDHKELVVKSQILAGGRGLGTFKSGLK 93
++ K G NVP+ + S+++ + A +++ +V+K + G G+ F+ G++
Sbjct: 496 VLQKAGFNVPQSVEFTSLEKAVASY--ALFENRAVVIKPKSTNYGLGITIFQQGVQ 549
>1wr2_A Hypothetical protein PH1789; structural genomics, NPPSFA, national
on protein structural and functional analyses; 2.00A
{Pyrococcus horikoshii}
Length = 238
Score = 34.1 bits (79), Expect = 0.036
Identities = 22/105 (20%), Positives = 45/105 (42%), Gaps = 16/105 (15%)
Query: 26 RRLNIHEYQGAELMAKYGINVPKGLAVASVDE-VKKAIQDAFPDHKELVVKSQILAGGRG 84
R + EY+ +++ YG+ VP+ ++DE ++ A + +P +V+K
Sbjct: 16 GRTAMVEYEAKQVLKAYGLPVPEEKLAKTLDEALEYAKEIGYP----VVLK----LMSPQ 67
Query: 85 LGTFKSGLKGGVH--IVKKEEVEDLAGKMLGQILVTKQTGPQGKI 127
+ KS V I +EE++ ++ K+ P +I
Sbjct: 68 I-LHKSDA-KVVMLNIKNEEELKKKWEEIHENA---KKYRPDAEI 107
>3vmm_A Alanine-anticapsin ligase BACD; ATP-grAsp domain, amino acid
ligase, ATP binding; HET: ADP P0D; 2.50A {Bacillus
subtilis}
Length = 474
Score = 34.5 bits (79), Expect = 0.040
Identities = 11/49 (22%), Positives = 23/49 (46%), Gaps = 5/49 (10%)
Query: 37 ELMAKYGINVPKGLAVASVDEVKKAIQD-AFPDHKELVVKSQILAGGRG 84
+ K G+ K V ++++ + A+++ P L++K LA G
Sbjct: 145 DAFNKAGVKSIKNKRVTTLEDFRAALEEIGTP----LILKPTYLASSIG 189
>3ln6_A Glutathione biosynthesis bifunctional protein GSH; gamma-glutamyl
cysteine ligase domain, ATP-grAsp domain, HYB enzyme;
2.95A {Streptococcus agalactiae serogroup V}
Length = 750
Score = 34.5 bits (79), Expect = 0.044
Identities = 11/52 (21%), Positives = 17/52 (32%), Gaps = 2/52 (3%)
Query: 38 LMAKYGINVPKGLAVASVDEVKKAIQDAFPDHKELVVKSQILAGGRGLGTFK 89
++ + P G E K +VVK + G G+ FK
Sbjct: 491 ILDEKHFPTPFGDEFTDRKEALNYFSQI--QDKPIVVKPKSTNFGLGISIFK 540
>2pn1_A Carbamoylphosphate synthase large subunit; ZP_00538348.1, ATP-grAsp
domain, carbamoylphosphate synthase subunit (split gene
in MJ); 2.00A {Exiguobacterium sibiricum}
Length = 331
Score = 31.0 bits (70), Expect = 0.39
Identities = 8/48 (16%), Positives = 14/48 (29%), Gaps = 3/48 (6%)
Query: 37 ELMAKYGINVPKGLAVASVDEVKKAIQDAFPDHKELVVKSQILAGGRG 84
E + GI + A + E A + VK + +
Sbjct: 120 EYCLRQGIAHARTYATMASFE---EALAAGEVQLPVFVKPRNGSASIE 164
>2pgn_A Cyclohexane-1,2-dione hydrolase (CDH); three alpha/beta domains;
HET: P6G FAD TPP; 1.20A {Azoarcus SP} PDB: 2pgo_A*
Length = 589
Score = 29.8 bits (68), Expect = 1.0
Identities = 11/62 (17%), Positives = 21/62 (33%), Gaps = 13/62 (20%)
Query: 19 QWQQQQLRRLNIHEYQG------AELMAKYGINVPKGLAVASVDEVKKAIQDAFPDHKEL 72
Q + N E+ A+ +G G +V ++ A+Q A D +
Sbjct: 486 TLMNHQFGQNNWTEFMNPDWVGIAK---AFGA---YGESVRETGDIAGALQRAI-DSGKP 538
Query: 73 VV 74
+
Sbjct: 539 AL 540
>1zmb_A Acetylxylan esterase related enzyme; alpha-beta protein, structural
genomics, PSI, protein struct initiative; 2.61A
{Clostridium acetobutylicum} SCOP: c.23.10.7
Length = 290
Score = 29.4 bits (65), Expect = 1.2
Identities = 11/54 (20%), Positives = 23/54 (42%), Gaps = 5/54 (9%)
Query: 141 NEMYFAIMLDRKTAGPII--IGCSKGGTSIEDL---AEKYPNMIVKVPIDVFNG 189
FA +K II I C++GG+SI++ + + + + + +
Sbjct: 56 LAGSFADAWSQKNQEDIIGLIPCAEGGSSIDEWALDGVLFRHALTEAKFAMESS 109
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.6 bits (63), Expect = 1.9
Identities = 9/59 (15%), Positives = 25/59 (42%), Gaps = 12/59 (20%)
Query: 19 QWQQQQLRRLNIHEYQGAELMAKYGINVPKGLAVASVDEVKKAIQDAFPDHKELVVKSQ 77
+W+++Q +RL + + ++ ++ KK +++ E V K++
Sbjct: 89 KWREEQRKRLQELDAASKVMEQEW------------REKAKKDLEEWNQRQSEQVEKNK 135
>2nxw_A Phenyl-3-pyruvate decarboxylase; thiamine pyrophosphate, asymmetric
dimer of dimers, open ACT loops, lyase; HET: TPP; 1.50A
{Azospirillum brasilense} PDB: 2q5j_A* 2q5l_A* 2q5o_A*
2q5q_A*
Length = 565
Score = 29.1 bits (66), Expect = 2.0
Identities = 12/63 (19%), Positives = 27/63 (42%), Gaps = 4/63 (6%)
Query: 12 RSLTVAGQWQQQQLRRLNIHEYQGAELMAKYGINVPKGLAVASVDEVKKAIQDAFPDHKE 71
S + +Q + ++ +++ A++ A G G+ V + E+K A+ AF
Sbjct: 477 ASWEMLRTFQPES-AFNDLDDWRFADMAAGMGG---DGVRVRTRAELKAALDKAFATRGR 532
Query: 72 LVV 74
+
Sbjct: 533 FQL 535
>2zjr_K 50S ribosomal protein L17; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: d.188.1.1 PDB: 1nwx_L* 1nwy_L*
1sm1_L* 1xbp_L* 2zjp_K* 2zjq_K 1nkw_L 3cf5_K* 3dll_K*
3pio_K* 3pip_K* 1pnu_L 1pny_L 1vor_O 1vou_O 1vow_O
1voy_O 1vp0_O
Length = 116
Score = 27.1 bits (61), Expect = 2.9
Identities = 12/26 (46%), Positives = 16/26 (61%), Gaps = 1/26 (3%)
Query: 186 VFNGITDEDA-AKVVDGLAPKVADRN 210
V I D+D KV+D +APK A+R
Sbjct: 66 VAQDIHDKDVVRKVMDEVAPKYAERP 91
>3lhp_S 4E10_D0_1ISEA_004_N (T93); epitope-scaffold, immune system; 2.70A
{Artificial gene} PDB: 1y69_8
Length = 123
Score = 27.1 bits (61), Expect = 3.0
Identities = 13/33 (39%), Positives = 17/33 (51%), Gaps = 5/33 (15%)
Query: 194 DAAKVVDGLA--PKVADRN---DAIEQVKKLYK 221
D K+V G A +VA RN DA ++ L K
Sbjct: 50 DWLKIVRGEAEQARVAVRNVGRDANDKAAALGK 82
>3bbo_P Ribosomal protein L17; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.2
Length = 205
Score = 27.8 bits (62), Expect = 3.0
Identities = 3/26 (11%), Positives = 9/26 (34%), Gaps = 1/26 (3%)
Query: 186 VFNGITDEDA-AKVVDGLAPKVADRN 210
I ++ + + + +RN
Sbjct: 155 ALGFIYEKQIVHALFAEVPDRYGERN 180
>2cqm_A Ribosomal protein L17 isolog; alpha and beta (A+B), structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} SCOP:
d.188.1.1 PDB: 2ftc_J 3iy9_S
Length = 122
Score = 27.2 bits (61), Expect = 3.0
Identities = 7/26 (26%), Positives = 13/26 (50%), Gaps = 1/26 (3%)
Query: 186 VFNGITDEDA-AKVVDGLAPKVADRN 210
+T++D K+ LAP+ D+
Sbjct: 56 ADFWLTEKDLIPKLFQVLAPRYKDQT 81
>1gd8_A 50S ribosomal protein L17; two domains, ribosomal protein S8-like
domain, Trp repressor-like domain, helix-turn-helix
motif; 2.30A {Thermus thermophilus} SCOP: d.188.1.1 PDB:
1vsa_L 1vsp_L 1yl3_0 2b66_R 2b9n_R 2b9p_R 2hgj_Q 2hgq_Q
2hgu_Q 2j01_R 2j03_R 2jl6_R 2jl8_R 2v47_R 2v49_R 2wdi_R
2wdj_R 2wdl_R 2wdn_R 2wh2_R ...
Length = 118
Score = 27.1 bits (61), Expect = 3.1
Identities = 8/26 (30%), Positives = 12/26 (46%), Gaps = 1/26 (3%)
Query: 186 VFNGITDEDA-AKVVDGLAPKVADRN 210
V + D K+ D +AP+ DR
Sbjct: 66 VLRDLQDVKLVRKLFDEIAPRYRDRQ 91
>3r8s_N 50S ribosomal protein L17; protein biosynthesis, RNA, tRNA,
transfer RNA, 23S ribosomal subunit, ribosome recycling
factor, RRF, ribosome; 3.00A {Escherichia coli} PDB:
3fik_N 2wwq_N 3oat_N* 3oas_N* 3ofd_N 3ofc_N 3ofr_N*
3ofz_N* 3og0_N 3ofq_N 3r8t_N 3i1n_N 1p85_L 1p86_L 1vs8_N
1vs6_N 2aw4_N 2awb_N 1vt2_N 2i2v_N ...
Length = 120
Score = 27.1 bits (61), Expect = 3.2
Identities = 8/26 (30%), Positives = 12/26 (46%), Gaps = 1/26 (3%)
Query: 186 VFNGITDEDA-AKVVDGLAPKVADRN 210
F D + AK+ + L P+ A R
Sbjct: 66 AFARTRDNEIVAKLFNELGPRFASRA 91
>2jer_A Agmatine deiminase; hydrolase, tetramer, AGDI, 5- fold
pseudosymmetric structure, agmatine degradation pathway,
covalent amidino adduct; HET: AGT; 1.65A {Enterococcus
faecalis} SCOP: d.126.1.6
Length = 389
Score = 28.1 bits (62), Expect = 3.3
Identities = 10/45 (22%), Positives = 19/45 (42%), Gaps = 12/45 (26%)
Query: 56 DEVKKAIQDAFPDHKELVVKS-QILAGGRGLGTFKSGLKGGVHIV 99
+ +Q FPD K + V + +++ GG G +H +
Sbjct: 325 RLALEQVQTMFPDKKIVGVNTVEVVYGG-----------GNIHXI 358
>1uc8_A LYSX, lysine biosynthesis enzyme; alpha-aminoadipate pathway, riken
structural genomics/proteomics initiative, RSGI,
structural genomics; 2.00A {Thermus thermophilus} SCOP:
c.30.1.6 d.142.1.7 PDB: 1uc9_A*
Length = 280
Score = 28.2 bits (63), Expect = 3.4
Identities = 11/52 (21%), Positives = 21/52 (40%), Gaps = 7/52 (13%)
Query: 38 LMAKYGINVPKGLAVASVDEVKKAIQDA-FPDHKELVVKSQILAGGRGLGTF 88
+AK G+ PK +E + ++ +P +V+K + G G
Sbjct: 95 ALAKAGLPQPKTALATDREEALRLMEAFGYP----VVLKP--VIGSWGRLLA 140
>3o0h_A Glutathione reductase; ssgcid, structur genomics, seattle
structural genomics center for infectious gluathione
reductase, oxidoreductase; HET: FAD; 1.90A {Bartonella
henselae}
Length = 484
Score = 28.3 bits (64), Expect = 3.6
Identities = 15/71 (21%), Positives = 27/71 (38%), Gaps = 1/71 (1%)
Query: 36 AELMAKYGINVPKGLAVASVDEVKKAIQDAFPDHKELVVKSQILAGGRGLGTFKSGL-KG 94
+ M GI++ V+ V + + + + +LA GR T GL +
Sbjct: 239 NDAMVAKGISIIYEATVSQVQSTENCYNVVLTNGQTICADRVMLATGRVPNTTGLGLERA 298
Query: 95 GVHIVKKEEVE 105
GV + + V
Sbjct: 299 GVKVNEFGAVV 309
>3lf9_A 4E10_D0_1IS1A_001_C (T161); epitope-scaffold, immune system; 2.00A
{Artificial gene}
Length = 121
Score = 26.8 bits (60), Expect = 4.1
Identities = 13/33 (39%), Positives = 16/33 (48%), Gaps = 5/33 (15%)
Query: 194 DAAKVVDGLA--PKVADRN---DAIEQVKKLYK 221
D K+V G A +VA RN DA + L K
Sbjct: 40 DLVKIVRGEAEGGRVAVRNIARDAANDLAALGK 72
>1eh1_A Ribosome recycling factor; translation, hinge variability; 2.60A
{Thermus thermophilus} SCOP: d.67.3.1 PDB: 2qbe_6 2qbg_6
2qbi_6* 2qbk_6* 2v46_Y* 2v48_Y* 2z4l_6* 2z4n_6* 3j0d_J
3j0e_G
Length = 185
Score = 27.1 bits (61), Expect = 5.2
Identities = 12/33 (36%), Positives = 19/33 (57%), Gaps = 5/33 (15%)
Query: 194 DAAKVVDGLA--PKVADRN---DAIEQVKKLYK 221
D + V A +VA RN +A++++KKL K
Sbjct: 113 DLVRAVRQYAEEGRVAIRNIRREALDKLKKLAK 145
>4gfq_A Ribosome-recycling factor; structural genomics, niaid, national
institute of allergy AN infectious diseases; 2.65A
{Bacillus anthracis}
Length = 209
Score = 27.2 bits (61), Expect = 5.5
Identities = 15/33 (45%), Positives = 17/33 (51%), Gaps = 5/33 (15%)
Query: 194 DAAKVVDGLA--PKVADRN---DAIEQVKKLYK 221
D KVV A KVA RN D + +KKL K
Sbjct: 136 DLVKVVKKYAEEAKVAVRNVRRDGNDDLKKLEK 168
>2c2u_A DPS, DNA-binding stress response protein; DNA-binding protein,
iron; 1.1A {Deinococcus radiodurans} PDB: 2c2f_A 2f7n_A
Length = 207
Score = 27.1 bits (60), Expect = 5.6
Identities = 11/71 (15%), Positives = 22/71 (30%)
Query: 148 MLDRKTAGPIIIGCSKGGTSIEDLAEKYPNMIVKVPIDVFNGITDEDAAKVVDGLAPKVA 207
K +G G D A+ V + + + +++ V + L +A
Sbjct: 11 ASKTKKSGVPETGAQGVRAGGADHADAAHLGTVNNALVNHHYLEEKEFQTVAETLQRNLA 70
Query: 208 DRNDAIEQVKK 218
+ KK
Sbjct: 71 TTISLYLKFKK 81
>1dd5_A Ribosome recycling factor; three-helix bundle, beta-alpha-beta
sandwich; 2.55A {Thermotoga maritima} SCOP: d.67.3.1
PDB: 1t1m_C
Length = 185
Score = 27.1 bits (61), Expect = 5.7
Identities = 7/33 (21%), Positives = 15/33 (45%), Gaps = 5/33 (15%)
Query: 194 DAAKVVDGLA--PKVADRN---DAIEQVKKLYK 221
K + K+A RN + ++++K+ K
Sbjct: 112 KWVKKAKEIVEEGKIAIRNIRREILKKIKEDQK 144
>1wx8_A Riken cDNA 4931431F19; ubiquitin-like domain, ubiquilin 1-like,
structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Mus musculus}
SCOP: d.15.1.1
Length = 96
Score = 25.8 bits (57), Expect = 6.3
Identities = 14/54 (25%), Positives = 21/54 (38%), Gaps = 7/54 (12%)
Query: 53 ASVDEVKKAIQDAF---PDHKELVVKSQILAGGRGLGTFKSGLKGG--VHIVKK 101
++V KK I D L+ +IL L G+ G VH+V +
Sbjct: 37 SNVRRFKKQISKYLHCNADRLVLIFTGKILRDQDILSQR--GILDGSTVHVVVR 88
>2qmq_A Protein NDRG2, protein NDR2; alpha/beta-hydrolases fold, NDR
family, developmental protei differentiation,
neurogenesis, phosphorylation; HET: 2PE; 1.70A {Mus
musculus} PDB: 2xmq_A 2xmr_A 2xms_A
Length = 286
Score = 27.0 bits (59), Expect = 6.5
Identities = 14/71 (19%), Positives = 27/71 (38%), Gaps = 3/71 (4%)
Query: 142 EMYFAIMLDRKTAGPIIIGCSKGGTSIEDLAEKYPNMIVK-VPIDVFNGI--TDEDAAKV 198
+M I+ + I +G G + A +P+ + V I++ + AA
Sbjct: 99 DMIPCILQYLNFSTIIGVGVGAGAYILSRYALNHPDTVEGLVLINIDPNAKGWMDWAAHK 158
Query: 199 VDGLAPKVADR 209
+ GL + D
Sbjct: 159 LTGLTSSIPDM 169
>1a9x_A Carbamoyl phosphate synthetase (large chain); amidotransferase,
thioester; HET: CYG ADP; 1.80A {Escherichia coli} SCOP:
a.92.1.1 c.24.1.1 c.30.1.1 c.30.1.1 d.142.1.2 d.142.1.2
PDB: 1ce8_A* 1m6v_A* 1c30_A* 1bxr_A* 1c3o_A* 1cs0_A*
1jdb_B* 1kee_A* 1t36_A*
Length = 1073
Score = 27.5 bits (62), Expect = 6.5
Identities = 17/88 (19%), Positives = 32/88 (36%), Gaps = 22/88 (25%)
Query: 37 ELMAKYGINVPKGLAVASVDEVKKAIQD-AFPDHKELVVKSQILAGGRGLGTFKSGLKGG 95
M K G+ + +++E D FP +++ GG G GG
Sbjct: 134 VAMKKIGLETARSGIAHTMEEALAVAADVGFP----CIIRPSFTMGGSG---------GG 180
Query: 96 VHIVK-KEEVEDLAGK-----MLGQILV 117
I +EE E++ + ++L+
Sbjct: 181 --IAYNREEFEEICARGLDLSPTKELLI 206
>1ise_A Ribosome recycling factor; translation; 2.20A {Escherichia coli}
SCOP: d.67.3.1 PDB: 1ek8_A* 1zn0_A 1zn1_A 2rdo_8
Length = 185
Score = 26.7 bits (60), Expect = 6.6
Identities = 15/33 (45%), Positives = 19/33 (57%), Gaps = 5/33 (15%)
Query: 194 DAAKVVDGLA--PKVADRN---DAIEQVKKLYK 221
D K+V G A +VA RN DA ++VK L K
Sbjct: 112 DLTKIVRGEAEQARVAVRNVGRDANDKVKALLK 144
>1is1_A Ribosome recycling factor; translation; 2.20A {Vibrio
parahaemolyticus} SCOP: d.67.3.1 PDB: 3r8n_Y
Length = 185
Score = 26.7 bits (60), Expect = 6.8
Identities = 14/33 (42%), Positives = 17/33 (51%), Gaps = 5/33 (15%)
Query: 194 DAAKVVDGLA--PKVADRN---DAIEQVKKLYK 221
D K+V G A +VA RN DA +K L K
Sbjct: 112 DLVKIVRGEAEGGRVAVRNIRRDANNDLKALLK 144
>1wqg_A Ribosome recycling factor; translation factor, triple-helix bundle,
protein synthesis, translation; 2.15A {Mycobacterium
tuberculosis} SCOP: d.67.3.1 PDB: 1wqf_A 1wqh_A
Length = 185
Score = 26.7 bits (60), Expect = 7.9
Identities = 8/33 (24%), Positives = 15/33 (45%), Gaps = 5/33 (15%)
Query: 194 DAAKVVDGLA--PKVADRN---DAIEQVKKLYK 221
+ K KV+ RN A+E++ ++ K
Sbjct: 112 ELVKQAKHKGEEAKVSVRNIRRKAMEELHRIRK 144
>2nwu_A UPF0201 protein SSO1042; conserved hypothetical protein, sulfolobus
solfataricus P2, structural genomics, PSI-2; 2.40A
{Sulfolobus solfataricus} SCOP: d.77.1.2
Length = 155
Score = 26.1 bits (57), Expect = 9.6
Identities = 18/106 (16%), Positives = 33/106 (31%), Gaps = 8/106 (7%)
Query: 54 SVDEVKKAIQDAFPDHKELVVKSQILAGGRGLGTFKSGLKGGVHIVKKEEVEDLAGKMLG 113
V++V AI + F K K I+ L +++ E + D A K L
Sbjct: 17 DVNKVLSAISNFFDFEKMNTRKEGIIDILVLEARTLKSLLKFHRVLRNERILDSARKYLM 76
Query: 114 QILVTKQTGPQGKIVSKVYLCEKLSLVNEMYFAIMLDRKTAGPIII 159
+ + + ++ + V + F G I
Sbjct: 77 KGIEGNTI--------AFMIHKQAAAVGVLSFVDSDKESPLGAIKF 114
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 0.141 0.406
Gapped
Lambda K H
0.267 0.0765 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,451,455
Number of extensions: 276447
Number of successful extensions: 1061
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1037
Number of HSP's successfully gapped: 64
Length of query: 294
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 201
Effective length of database: 4,105,140
Effective search space: 825133140
Effective search space used: 825133140
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 57 (25.7 bits)