RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8579
(168 letters)
>1s3a_A NADH-ubiquinone oxidoreductase B8 subunit; CI-B8, ndufa2, complex
I; NMR {Homo sapiens} SCOP: c.47.1.22
Length = 102
Score = 40.2 bits (94), Expect = 3e-05
Identities = 12/68 (17%), Positives = 32/68 (47%)
Query: 43 RGAKEFVFWHFTQIQFKNPNVQLQVFKNMTPTPFITTYLENGSEMLIDVDNKSKDEIHDH 102
+G ++F+ + +++ NP++ + + + P + G E + ++N S D++
Sbjct: 34 QGVRDFIEKRYVELKKANPDLPILIRECSDVQPKLWARYAFGQETNVPLNNFSADQVTRA 93
Query: 103 VLKVLGKS 110
+ VL
Sbjct: 94 LENVLSGK 101
>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 = 33.7 bits (76), Expect = 0.022
Identities = 22/104 (21%), Positives = 33/104 (31%), Gaps = 27/104 (25%)
Query: 59 KNPNVQLQVFKNMTPTPFITT-------YLENGSEMLIDVDNKS----KDEIHDHVLKVL 107
+N F +TT +L + I +D+ S DE+ +LK L
Sbjct: 254 QNAKA-WNAFNLSCKI-LLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL 311
Query: 108 GKSEQVLKAEA----------IAREKKDNPANFGF----KCEKH 137
Q L E IA +D A + C+K
Sbjct: 312 DCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKL 355
Score = 27.9 bits (61), Expect = 1.8
Identities = 28/155 (18%), Positives = 52/155 (33%), Gaps = 42/155 (27%)
Query: 11 RRTLKYLNAGRIVFK-DKIKIFAINYNF--------NAENHRGAKEF--VFWHFTQIQFK 59
R + + N + D I + Y + N E+ F VF F ++ K
Sbjct: 447 RSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQK 506
Query: 60 NPNVQLQVFKNMTPTPFITTYLENGSEMLIDVDNKSKDEIHDHVLKVLGKSEQVLKAEAI 119
++ + + + N L + K I D+ K E+++ A
Sbjct: 507 --------IRHDSTAWNASGSILN---TLQQL-KFYKPYICDND----PKYERLVNAIL- 549
Query: 120 AREKKDNPANFGFKCEKHCICQIPGQITCPGLVRL 154
+F K E++ IC + T L+R+
Sbjct: 550 ---------DFLPKIEENLIC---SKYTD--LLRI 570
>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 = 33.5 bits (76), Expect = 0.028
Identities = 32/192 (16%), Positives = 60/192 (31%), Gaps = 70/192 (36%)
Query: 7 EAPIRRTLKYLNAGRIVFKDKIKIFAINYNFNAENHRGAKEFV-------FWHF------ 53
+ + +T +L AG+ +++I +N GAK V +
Sbjct: 350 QDYVNKTNSHLPAGK-----QVEISLVN---------GAKNLVVSGPPQSLYGLNLTLRK 395
Query: 54 ---------TQIQF--KNPNVQLQVFKNMTPTPFITTYLENGSEMLIDVDNKSKDEIHDH 102
++I F + + F + +PF + L S+++ K+ +
Sbjct: 396 AKAPSGLDQSRIPFSERKLKFSNR-FLPVA-SPFHSHLLVPASDLINKDLVKNNVSFNAK 453
Query: 103 VLK--VL----GKSEQVLKAE-------AIAREKKDNPANFGFKCEK-------HCICQI 142
++ V G +VL I R P + E H +
Sbjct: 454 DIQIPVYDTFDGSDLRVLSGSISERIVDCIIRL----PVKW----ETTTQFKATHILDFG 505
Query: 143 PGQITCPGLVRL 154
PG + GL L
Sbjct: 506 PGGAS--GLGVL 515
Score = 29.6 bits (66), Expect = 0.48
Identities = 20/138 (14%), Positives = 50/138 (36%), Gaps = 50/138 (36%)
Query: 25 KDKIKIFAINYNF----NAENHRGAKEFVFWHFTQIQFKNPNVQLQVFKNMTPTPFITTY 80
+ ++ AI F N +++ F +++ +++ T +
Sbjct: 151 EGNAQLVAI---FGGQGNTDDY----------FEELR--------DLYQ--TYHVLVGDL 187
Query: 81 LENGSEMLIDV--DNKSKDEIHDHVLKVLGKSEQVLKAEAIAREKKDNPANFGFKCEKHC 138
++ +E L ++ +++ L +L + L E N + +
Sbjct: 188 IKFSAETLSELIRTTLDAEKVFTQGLNIL----EWL-------ENPSNTPDKDY------ 230
Query: 139 ICQIPGQITCP--GLVRL 154
+ IP I+CP G+++L
Sbjct: 231 LLSIP--ISCPLIGVIQL 246
Score = 26.2 bits (57), Expect = 8.6
Identities = 16/85 (18%), Positives = 28/85 (32%), Gaps = 25/85 (29%)
Query: 98 EIHDHVLKVLGKSEQVLKAEAIAREKKDNPANFGFKCEKHCI---------CQ--IPGQI 146
E+ ++ G S+ ++ A AIA D+ +F F + I C P
Sbjct: 262 ELRSYLKGATGHSQGLVTAVAIAET--DSWESF-FVSVRKAITVLFFIGVRCYEAYPNTS 318
Query: 147 TCPGLVR--------LPDSM---RG 160
P ++ +P M
Sbjct: 319 LPPSILEDSLENNEGVPSPMLSISN 343
>3ucq_A Amylosucrase; thermostability, amylose synthesis, sucrose
isomerization, beta/alpha-barrel, carbohydrate binding,
transferase; 1.97A {Deinococcus geothermalis} PDB:
3uer_A*
Length = 655
Score = 31.4 bits (71), Expect = 0.15
Identities = 27/133 (20%), Positives = 45/133 (33%), Gaps = 34/133 (25%)
Query: 21 RIVFKDKIKIFAINYNFNAENHRGAKEFVFWH-FTQIQ----FKNPNVQLQVFKNMTPTP 75
+F D N++++ E G +V W F Q + NP+V L+ +
Sbjct: 224 PEIFPD---FAPGNFSWDEEIGEGEGGWV-WTTFNSYQWDLNWANPDVFLEFVDII---- 275
Query: 76 FITTYLENGSEML-IDV----------DNKSKDEIHDHVLKVL------GKSEQVLKAEA 118
G E+ +D D +++ E+H + + L KAEA
Sbjct: 276 --LYLANRGVEVFRLDAIAFIWKRLGTDCQNQPEVHH-LTRALRAAARIVAPAVAFKAEA 332
Query: 119 IAREKKDNPANFG 131
I D G
Sbjct: 333 IV-APADLIHYLG 344
>1e7u_A Phosphatidylinositol 3-kinase catalytic subunit; phosphoinositide
3-kinase gamma, secondary messenger generation, PI3K, PI
3K, wortmannin; HET: KWT; 2.0A {Sus scrofa} SCOP:
a.118.1.6 b.7.1.1 d.15.1.5 d.144.1.4 PDB: 1e8x_A*
1e8w_A* 1e7v_A* 1e90_A* 3l54_A* 3s2a_A* 3qaq_A* 3qjz_A*
3qk0_A* 3qar_A* 3apc_A* 3apd_A* 3apf_A* 3dbs_A* 3l13_A*
3r7q_A* 3cst_A* 3csf_A* 3l16_A* 3l17_A* ...
Length = 961
Score = 31.0 bits (69), Expect = 0.20
Identities = 12/59 (20%), Positives = 24/59 (40%)
Query: 53 FTQIQFKNPNVQLQVFKNMTPTPFITTYLENGSEMLIDVDNKSKDEIHDHVLKVLGKSE 111
F I + ++V + TP + ++ ++ +D D VL+V G+ E
Sbjct: 80 FIVIHRSTTSQTIKVSADDTPGTILQSFFTKMAKKKSLMDIPESQNERDFVLRVCGRDE 138
>1g5a_A Amylosucrase; glycosyltransferase, glycoside hydrolase,
(beta-alpha)8 barrel; HET: EPE; 1.40A {Neisseria
polysaccharea} SCOP: b.71.1.1 c.1.8.1 PDB: 1jg9_A*
1mw1_A* 1mw2_A* 1mw3_A* 3ueq_A* 1jgi_A* 1mvy_A* 1mw0_A*
1s46_A* 1zs2_A*
Length = 628
Score = 29.8 bits (67), Expect = 0.44
Identities = 16/104 (15%), Positives = 28/104 (26%), Gaps = 30/104 (28%)
Query: 50 FWH-FTQIQ----FKNPNVQLQVFKNMTPTPFITTYLENGSEML-IDV----------DN 93
W F Q + NP V + M G ++L +D
Sbjct: 246 VWTTFNSFQWDLNYSNPWVFRAMAGEM------LFLANLGVDILRMDAVAFIWKQMGTSC 299
Query: 94 KSKDEIHDHVLKVL------GKSEQVLKAEAIAREKKDNPANFG 131
++ + H +++ K+EAI G
Sbjct: 300 ENLPQAHA-LIRAFNAVMRIAAPAVFFKSEAIV-HPDQVVQYIG 341
>3czg_A Sucrose hydrolase; (alpha/beta)8-barrel; HET: GLC; 1.80A
{Xanthomonas axonopodis PV} PDB: 3cze_A* 3czl_A* 3czk_A*
2wpg_A
Length = 644
Score = 29.1 bits (65), Expect = 0.66
Identities = 24/104 (23%), Positives = 31/104 (29%), Gaps = 30/104 (28%)
Query: 50 FWH-FTQIQ----FKNPNVQLQVFKNMTPTPFITTYLENGSEML-IDV----------DN 93
W F Q + NP V + M G E +D D
Sbjct: 240 MWTTFYPYQWDLNWSNPAVFGDMALAM------LRLANLGVEAFRLDSTAYLWKRIGTDC 293
Query: 94 KSKDEIHDHVLKVL------GKSEQVLKAEAIAREKKDNPANFG 131
++ E H +L L V+KAEAI P FG
Sbjct: 294 MNQSEAHT-LLVALRAVTDIVAPAVVMKAEAIV-PMTQLPPYFG 335
>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase,
transferase (phosphotransferase); HET: AP5; 1.63A
{Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB:
2aky_A* 3aky_A* 1dvr_A*
Length = 220
Score = 28.3 bits (64), Expect = 0.96
Identities = 11/47 (23%), Positives = 20/47 (42%), Gaps = 4/47 (8%)
Query: 65 LQVFKNMTPTPFITTYLENGSEMLIDVD-NKSKDEIHDHVLKVLGKS 110
L + T P + Y + G + VD ++ + +L LGK+
Sbjct: 177 LAAYHAQT-EPIVDFYKKTG--IWAGVDASQPPATVWADILNKLGKN 220
>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A
{Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A*
1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*
Length = 214
Score = 28.3 bits (64), Expect = 1.0
Identities = 13/48 (27%), Positives = 18/48 (37%), Gaps = 5/48 (10%)
Query: 65 LQVFKNMTPTPFITTYLENGSE---MLIDVD-NKSKDEIHDHVLKVLG 108
L + MT P I Y + VD K E+ + K+LG
Sbjct: 168 LVEYHQMT-APLIGYYSKEAEAGNTKYAKVDGTKPVAEVRADLEKILG 214
>2y3a_A Phosphatidylinositol-4,5-bisphosphate 3-kinase Ca subunit beta
isoform; transferase, phosphoinositide 3-kinase, RTK;
HET: GD9; 3.30A {Mus musculus}
Length = 1092
Score = 28.3 bits (62), Expect = 1.3
Identities = 15/63 (23%), Positives = 24/63 (38%), Gaps = 8/63 (12%)
Query: 49 VFWHFTQIQFKNPNVQLQVFKNMTPTPFITTYLENGSEMLIDVDNKSKDEIHDHVLKVLG 108
V + +Q F QV N+ P ++ + D S D+VL+V G
Sbjct: 223 VHFENSQDVFS-----FQVSPNLNPIKINELAIQKRLTIRGKEDEASPC---DYVLQVSG 274
Query: 109 KSE 111
+ E
Sbjct: 275 RVE 277
>3uem_A Protein disulfide-isomerase; thioredoxin-like domain, chaper; 2.29A
{Homo sapiens} PDB: 2k18_A 1x5c_A 1bjx_A 2bjx_A
Length = 361
Score = 28.1 bits (62), Expect = 1.6
Identities = 13/89 (14%), Positives = 28/89 (31%)
Query: 39 AENHRGAKEFVFWHFTQIQFKNPNVQLQVFKNMTPTPFITTYLENGSEMLIDVDNKSKDE 98
AE+ +G F+F + + K P + T E ++ + + + +
Sbjct: 161 AESFKGKILFIFIDSDHTDNQRILEFFGLKKEECPAVRLITLEEEMTKYKPESEELTAER 220
Query: 99 IHDHVLKVLGKSEQVLKAEAIAREKKDNP 127
I + + L + E D
Sbjct: 221 ITEFCHRFLEGKIKPHLMSQELPEDWDKQ 249
>1r7a_A Sucrose phosphorylase; beta-alpha-barrels, dimer, glycoside
hydrolase, transferase; 1.77A {Bifidobacterium
adolescentis} SCOP: b.71.1.1 c.1.8.1 PDB: 2gdv_A*
2gdu_A*
Length = 504
Score = 27.1 bits (60), Expect = 3.4
Identities = 7/73 (9%), Positives = 15/73 (20%), Gaps = 17/73 (23%)
Query: 21 RIVFKDKIKIFAINYNFNAENHRGAKEFVFWH-FTQIQ----FKNPNVQLQVFKNMTPTP 75
+++ + F G V W FT Q + +
Sbjct: 129 AGIYRPRPG-----LPFTHYKFAGKTRLV-WVSFTPQQVDIDTDSDKGWEYLMSIF---- 178
Query: 76 FITTYLENGSEML 88
+ +
Sbjct: 179 --DQMAASHVSYI 189
>3feg_A Choline/ethanolamine kinase; non-protein kinase, choline kinase,
structural genomics CONS SGC, hemicholinium-3,
phosphorylation; HET: HC7 ADP AMP; 1.30A {Homo sapiens}
PDB: 3lq3_A* 2ig7_A*
Length = 379
Score = 26.0 bits (56), Expect = 7.1
Identities = 14/90 (15%), Positives = 33/90 (36%), Gaps = 10/90 (11%)
Query: 25 KDKIKIFAINYNFNAENHRG---AKEFVFWHFTQIQFKNPNVQLQVFKNMTPTP-----F 76
++ + +++ +++ N+RG F W + + P + PT F
Sbjct: 239 ENADSLMLVDFEYSSYNYRGFDIGNHFCEWVYDYTHEEWP--FYKARPTDYPTQEQQLHF 296
Query: 77 ITTYLENGSEMLIDVDNKSKDEIHDHVLKV 106
I YL + + + D +++V
Sbjct: 297 IRHYLAEAKKGETLSQEEQRKLEEDLLVEV 326
>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A
{Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A*
1tmk_A*
Length = 216
Score = 25.7 bits (57), Expect = 8.8
Identities = 8/30 (26%), Positives = 15/30 (50%), Gaps = 3/30 (10%)
Query: 88 LIDVDNKSKDEIHDHVLKVLGKSEQVLKAE 117
++DV NK E+ + +++ E VL
Sbjct: 181 IVDVTNKGIQEVEALIWQIV---EPVLSTH 207
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
0.322 0.139 0.425
Gapped
Lambda K H
0.267 0.0533 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,620,663
Number of extensions: 147527
Number of successful extensions: 291
Number of sequences better than 10.0: 1
Number of HSP's gapped: 290
Number of HSP's successfully gapped: 21
Length of query: 168
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 81
Effective length of database: 4,272,666
Effective search space: 346085946
Effective search space used: 346085946
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: 54 (25.0 bits)