RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17484
(283 letters)
>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 = 45.0 bits (106), Expect = 2e-05
Identities = 35/165 (21%), Positives = 43/165 (26%), Gaps = 56/165 (33%)
Query: 75 LSPLVLSTGKTNC---------------KES--------SDKSKEDSELWSTVEAQAAFL 111
PL LS G +E ++ D E + E FL
Sbjct: 6 TRPLTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFL 65
Query: 112 G----PNIWDKTLPYDSDLKYVDLDEF----LSDNGIPVDGNTSQTSTGGAPTPAANLTG 163
G K +D L L EF L N I AA L
Sbjct: 66 GYVSSLVEPSKVGQFDQVLNLC-LTEFENCYLEGNDI--------------HALAAKLL- 109
Query: 164 GHTTTTLQNVTSTISGRLSPCGSSQASVMTKRERSPSPSEPMSPL 208
TTL I + A +M KR P + S L
Sbjct: 110 QENDTTLVKTKELIKNYI------TARIMAKR---PFDKKSNSAL 145
Score = 40.8 bits (95), Expect = 5e-04
Identities = 48/257 (18%), Positives = 77/257 (29%), Gaps = 106/257 (41%)
Query: 16 PLTISPPSP-ADSRKTNCKESS------DKSKEDSELWSTVEAQAAFLGPNIWDKTLPYD 68
P T PPS DS + N S + ++E ++ V N LP
Sbjct: 315 PNTSLPPSILEDSLENNEGVPSPMLSISNLTQE--QVQDYVNKT------N---SHLPAG 363
Query: 69 SDLKVML--SP--LVLSTG-------------KTNCKESSDKSK-EDSELWSTVEAQAAF 110
+++ L LV+ +G K D+S+ SE ++ F
Sbjct: 364 KQVEISLVNGAKNLVV-SGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSE--RKLKFSNRF 420
Query: 111 LGPNIWDKTLPYDS------------DLKYVDLDEFLSDNGIPV-DGNTSQTSTGGAPTP 157
L P + P+ S DL ++ D IPV D T G
Sbjct: 421 L-P-V---ASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYD-----TFDG----- 465
Query: 158 AANLTGGHTTTTLQNVTSTISGRLSPCGSSQASVMTKRERSPSPSEPMSPLTISPPSPAD 217
+ L+ ++ +IS R+ C ++ P
Sbjct: 466 ----------SDLRVLSGSISERIVDC------IIRL--------------------PVK 489
Query: 218 -STLSFTSSTR--DFDP 231
T + +T DF P
Sbjct: 490 WETTTQFKATHILDFGP 506
Score = 38.5 bits (89), Expect = 0.002
Identities = 63/376 (16%), Positives = 96/376 (25%), Gaps = 143/376 (38%)
Query: 16 PLTISPPS-------PA----------DSRKTNCKESSDKSKEDSELWSTVEAQAAFLG- 57
PLT+S S P + E ++ D E + E FLG
Sbjct: 8 PLTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGY 67
Query: 58 ---PNIWDKTLPYDSDLKVMLSPLVLSTGKTNCKESSDKSKEDSELWST-VEAQAAFLGP 113
K +D L + L+ E+ L + A AA L
Sbjct: 68 VSSLVEPSKVGQFDQVLNLCLTEF-----------------ENCYLEGNDIHALAAKL-L 109
Query: 114 NIWDKTLPYDSDL--KYVDLDEFLSDNGIPVDGNTSQTSTGGAPTPAANLT---GG---- 164
D TL +L Y+ P D ++ A L GG
Sbjct: 110 QENDTTLVKTKELIKNYITARIMA---KRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNT 166
Query: 165 ----------HTT--TTLQNVTSTISGRLSPCGSSQASV-------------MTKRERSP 199
+ T + ++ + LS + + +P
Sbjct: 167 DDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTP 226
Query: 200 SP----SEPMS-PLTI-----------------SP----------------------PSP 215
S P+S PL I +P +
Sbjct: 227 DKDYLLSIPISCPL-IGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAE 285
Query: 216 ADSTLSFTSSTRDFDP-------RS-RTFSDEELKPQPMVKKSRKQN------M----GL 257
DS SF S R R + + L P +++ S + N M L
Sbjct: 286 TDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPS-ILEDSLENNEGVPSPMLSISNL 344
Query: 258 RQEM--ERLKKENLSL 271
QE + + K N L
Sbjct: 345 TQEQVQDYVNKTNSHL 360
Score = 35.0 bits (80), Expect = 0.030
Identities = 29/189 (15%), Positives = 56/189 (29%), Gaps = 81/189 (42%)
Query: 101 WSTVEAQAAFLGPNIWDKTLPYDSDLKYVDLDEFLSDNGIPVDGNTSQTSTGGAPTPAAN 160
+ V A+ PN +LP ++ +E G P+P +
Sbjct: 305 FIGVRCYEAY--PNT---SLPPSILEDSLENNE-------------------GVPSPMLS 340
Query: 161 LTG--------------------GHTTTTLQN-----VTSTISG------RLS------- 182
++ +L N V +SG L+
Sbjct: 341 ISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLV---VSGPPQSLYGLNLTLRKAK 397
Query: 183 -PCGSSQASVMTKRERSPSPSEPMSPLTISPP------SPADSTLSFTSSTRDFDPRSRT 235
P G Q+ + ER S L ++ P PA ++ +D + +
Sbjct: 398 APSGLDQSRI-PFSERKLKFS--NRFLPVASPFHSHLLVPASDLIN-----KDLVKNNVS 449
Query: 236 FSDEELK-P 243
F+ ++++ P
Sbjct: 450 FNAKDIQIP 458
>1nkp_A C-MYC, MYC proto-oncogene protein; transcription, DNA, BHLHZ,
heterodimer, transcription/DNA complex; 1.80A {Homo
sapiens} SCOP: a.38.1.1
Length = 88
Score = 33.5 bits (77), Expect = 0.011
Identities = 7/31 (22%), Positives = 14/31 (45%)
Query: 247 VKKSRKQNMGLRQEMERLKKENLSLRDKLSK 277
+ + + L E + L+K L+ KL +
Sbjct: 54 ILSVQAEEQKLISEEDLLRKRREQLKHKLEQ 84
>1nkp_B MAX protein, MYC proto-oncogene protein; transcription, DNA, BHLHZ,
heterodimer, transcription/DNA complex; 1.80A {Homo
sapiens} SCOP: a.38.1.1 PDB: 1an2_A* 1r05_A 1nlw_B
Length = 83
Score = 32.7 bits (75), Expect = 0.021
Identities = 7/31 (22%), Positives = 19/31 (61%)
Query: 247 VKKSRKQNMGLRQEMERLKKENLSLRDKLSK 277
++ R++N +Q+++ LK++N L ++
Sbjct: 49 IQYMRRKNHTHQQDIDDLKRQNALLEQQVRA 79
>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 = 34.4 bits (78), Expect = 0.045
Identities = 17/71 (23%), Positives = 25/71 (35%), Gaps = 18/71 (25%)
Query: 205 MSPLTISPPSPADSTLSFTSSTRDFDPRSRTFSDEELKPQPMVKK--SRKQNMGLRQEME 262
MSP+ P+ T + R R ++D Q K SR Q
Sbjct: 95 MSPIKTEQRQPSMMTRMYIEQ------RDRLYND----NQVFAKYNVSRLQ------PYL 138
Query: 263 RLKKENLSLRD 273
+L++ L LR
Sbjct: 139 KLRQALLELRP 149
Score = 32.5 bits (73), Expect = 0.17
Identities = 17/120 (14%), Positives = 29/120 (24%), Gaps = 17/120 (14%)
Query: 25 ADSRKTNCKESSDKSKEDSELWSTVEAQAAFLGPNIWDKTLPYDSDLKVMLSPLVLSTGK 84
A + + + E +L D LP L +P LS
Sbjct: 283 AATTTHISLDHHSMTLTPDE---VKSLLLKYLDCRPQD--LP-REVLTT--NPRRLSIIA 334
Query: 85 TNCKESSDKSK--EDSELWSTVEAQAAFLGPNIWDKTL-PYDSDLKYVDLDEFLSDNGIP 141
+ ++ + + L L P + + L F IP
Sbjct: 335 ESIRDGLATWDNWKHVNCDKLTTIIESSL------NVLEPAEYRKMFDRLSVFPPSAHIP 388
>1nlw_A MAD protein, MAX dimerizer; transcription factor, DNA, BHLHZ,
transcription/DNA complex; 2.00A {Homo sapiens} SCOP:
a.38.1.1
Length = 80
Score = 29.8 bits (67), Expect = 0.18
Identities = 7/31 (22%), Positives = 17/31 (54%)
Query: 247 VKKSRKQNMGLRQEMERLKKENLSLRDKLSK 277
+KK + ++++L++E L+ +L K
Sbjct: 49 IKKLEDSDRKAVHQIDQLQREQRHLKRQLEK 79
>1ci6_A Transcription factor ATF-4; BZIP; 2.60A {Homo sapiens} SCOP:
h.1.3.1
Length = 63
Score = 29.2 bits (66), Expect = 0.24
Identities = 8/30 (26%), Positives = 17/30 (56%)
Query: 248 KKSRKQNMGLRQEMERLKKENLSLRDKLSK 277
+K R + L E + L+K+N +L+++
Sbjct: 19 QKKRAEQEALTGECKELEKKNEALKERADS 48
Score = 29.2 bits (66), Expect = 0.25
Identities = 9/29 (31%), Positives = 16/29 (55%)
Query: 247 VKKSRKQNMGLRQEMERLKKENLSLRDKL 275
K+ K+N L++ + L KE L+D +
Sbjct: 32 CKELEKKNEALKERADSLAKEIQYLKDLI 60
>1ga6_A Serine-carboxyl proteinase; serine-carboxyl proteinase,
hydrolase-hydrolase inhibitor CO; 1.00A {Pseudomonas SP}
SCOP: c.41.1.2 PDB: 1ga4_A* 1ga1_A 1kdv_A* 1kdy_A*
1kdz_A* 1ke1_A* 1ke2_A* 1nlu_A*
Length = 372
Score = 30.5 bits (68), Expect = 0.61
Identities = 12/49 (24%), Positives = 17/49 (34%), Gaps = 1/49 (2%)
Query: 122 YDSDLKYVDLDEFLSDNGIPVDGNTSQTSTGGAPTPAANLTGGHTTTTL 170
DL +F S NG+ NT TG + ++ G L
Sbjct: 36 GGVSQTLQDLQQFTSANGLA-SVNTQTIQTGSSNGDYSDDQQGQGEWDL 83
>1hjb_A Ccaat/enhancer binding protein beta; transcription/DNA, protein-DNA
complex; HET: DNA; 3.0A {Homo sapiens} SCOP: h.1.3.1
Length = 87
Score = 28.4 bits (63), Expect = 0.74
Identities = 9/36 (25%), Positives = 21/36 (58%)
Query: 247 VKKSRKQNMGLRQEMERLKKENLSLRDKLSKFTDLL 282
V + +N L++++E+L +E +LR+ + + L
Sbjct: 45 VLELTAENERLQKKVEQLSRELSTLRNLFKQLPEPL 80
Score = 25.7 bits (56), Expect = 7.6
Identities = 12/41 (29%), Positives = 19/41 (46%), Gaps = 4/41 (9%)
Query: 247 VKKSRKQNMGLRQEMER----LKKENLSLRDKLSKFTDLLS 283
V+KSR + E + L EN L+ K+ + + LS
Sbjct: 27 VRKSRDKAKMRNLETQHKVLELTAENERLQKKVEQLSRELS 67
>1gu4_A CAAT/enhancer binding protein beta; transcription/DNA, protein-DNA
complex, transcription factor, BZIP, C/EBP; 1.80A {Homo
sapiens} SCOP: h.1.3.1 PDB: 1gtw_A 1gu5_A 1h88_A 1h8a_A
1io4_A 2e43_A* 2e42_A* 1h89_A 1ci6_B 1nwq_A
Length = 78
Score = 27.9 bits (62), Expect = 0.90
Identities = 8/34 (23%), Positives = 20/34 (58%)
Query: 247 VKKSRKQNMGLRQEMERLKKENLSLRDKLSKFTD 280
V + +N L++++E+L +E +LR+ + +
Sbjct: 45 VLELTAENERLQKKVEQLSRELSTLRNLFKQLPE 78
Score = 27.6 bits (61), Expect = 1.2
Identities = 12/41 (29%), Positives = 19/41 (46%), Gaps = 4/41 (9%)
Query: 247 VKKSRKQNMGLRQEMER----LKKENLSLRDKLSKFTDLLS 283
V+KSR + E + L EN L+ K+ + + LS
Sbjct: 27 VRKSRDKAKMRNLETQHKVLELTAENERLQKKVEQLSRELS 67
>1hlo_A Protein (transcription factor MAX); transcriptional regulation, DNA
binding, complex (transcription factor MAX/DNA),
transcription/DNA complex; HET: DNA; 2.80A {Homo
sapiens} SCOP: a.38.1.1
Length = 80
Score = 27.3 bits (61), Expect = 1.3
Identities = 6/22 (27%), Positives = 16/22 (72%)
Query: 247 VKKSRKQNMGLRQEMERLKKEN 268
++ R++N +Q+++ LK++N
Sbjct: 59 IQYMRRKNHTHQQDIDDLKRQN 80
>1ik6_A Pyruvate dehydrogenase; E1BETA, tetramer, GXXXG, oxidoreductase;
2.00A {Pyrobaculum aerophilum} SCOP: c.36.1.7 c.48.1.2
Length = 369
Score = 29.1 bits (66), Expect = 1.5
Identities = 13/71 (18%), Positives = 24/71 (33%), Gaps = 7/71 (9%)
Query: 195 RERSPSPSEPMSPLTISPPSPADSTLSFTSSTRDFDPRSRTFSDEELKPQPMVKKSRKQ- 253
S + + A + S P T D+++ ++ + +
Sbjct: 2 HHHHHSSGLVPRGSGMKETAAAKFERNHMDS-----PDLGTDDDDKMVAGVVMMANMAKA 56
Query: 254 -NMGLRQEMER 263
NM L +EMER
Sbjct: 57 INMALHEEMER 67
>1dh3_A Transcription factor CREB; protein-DNA complex, transcription/DNA
complex; HET: DNA; 3.00A {Mus musculus} SCOP: h.1.3.1
Length = 55
Score = 26.6 bits (59), Expect = 1.6
Identities = 9/35 (25%), Positives = 17/35 (48%), Gaps = 2/35 (5%)
Query: 251 RKQN--MGLRQEMERLKKENLSLRDKLSKFTDLLS 283
+K+ L + L+ +N +L ++L DL S
Sbjct: 19 KKKEYVKSLENRVAVLENQNKTLIEELKALKDLYS 53
>2wt7_B Transcription factor MAFB; transcription, transcription regulation,
nucleus, activator, repressor, DNA-binding,
phosphoprotein, differentiation; 2.30A {Mus musculus}
PDB: 2wty_A* 1k1v_A
Length = 90
Score = 27.3 bits (60), Expect = 1.8
Identities = 9/34 (26%), Positives = 17/34 (50%)
Query: 247 VKKSRKQNMGLRQEMERLKKENLSLRDKLSKFTD 280
+ +Q L+QE+ RL +E + + K K +
Sbjct: 57 KTQLIQQVEQLKQEVSRLARERDAYKVKSEKLAN 90
Score = 25.3 bits (55), Expect = 8.8
Identities = 15/84 (17%), Positives = 30/84 (35%), Gaps = 25/84 (29%)
Query: 225 STRDFDPRSRTFSDEELKPQPMVKKSRK---------------------QNMGLRQEMER 263
S R+ + R F+ +E+ +++ K + L Q++E+
Sbjct: 7 SVRELNRHLRGFTKDEVIRLKQKRRTLKNRGYAQSCRYKRVQQKHHLENEKTQLIQQVEQ 66
Query: 264 LKKENLSLRDKL----SKFTDLLS 283
LK+E L + K L +
Sbjct: 67 LKQEVSRLARERDAYKVKSEKLAN 90
>2jn6_A Protein CGL2762, transposase; GFT PSI-2, protein structure,
structural genomics, protein structure initiative; NMR
{Corynebacterium glutamicum} SCOP: a.4.1.19
Length = 97
Score = 27.4 bits (61), Expect = 1.8
Identities = 4/19 (21%), Positives = 7/19 (36%)
Query: 251 RKQNMGLRQEMERLKKENL 269
+K+N R + L
Sbjct: 72 KKENALQRARTRHPAESCL 90
>1gd2_E Transcription factor PAP1; basic leucine zipper, protein-DNA
complex, transcription/DNA complex; HET: DNA; 2.00A
{Schizosaccharomyces pombe} SCOP: h.1.3.1
Length = 70
Score = 26.9 bits (59), Expect = 2.0
Identities = 7/25 (28%), Positives = 15/25 (60%)
Query: 248 KKSRKQNMGLRQEMERLKKENLSLR 272
+ +N LRQ++ +L++E L+
Sbjct: 46 SSTTLENDQLRQKVRQLEEELRILK 70
>3a5t_A Transcription factor MAFG; protein-DNA complex, BZIP factor,
acetylation, DNA-binding, isopeptide bond, nucleus;
2.80A {Mus musculus}
Length = 107
Score = 27.7 bits (61), Expect = 2.0
Identities = 17/74 (22%), Positives = 29/74 (39%), Gaps = 21/74 (28%)
Query: 225 STRDFDPRSRTFSDEELKPQPMVKKSRK---------------------QNMGLRQEMER 263
S R+ + R S EE+ +++ K Q L+QE+E+
Sbjct: 17 SVRELNQHLRGLSKEEIIQLKQRRRTLKNRGYAASCRVKRVTQKEELEKQKAELQQEVEK 76
Query: 264 LKKENLSLRDKLSK 277
L EN S++ +L
Sbjct: 77 LASENASMKLELDA 90
Score = 26.9 bits (59), Expect = 3.6
Identities = 7/36 (19%), Positives = 14/36 (38%)
Query: 247 VKKSRKQNMGLRQEMERLKKENLSLRDKLSKFTDLL 282
+ +++ L E +K E +LR K +
Sbjct: 67 KAELQQEVEKLASENASMKLELDALRSKYEALQNFA 102
>2j5u_A MREC protein; bacterial cell shape determining protein MREC, cell
shape regulation; 2.5A {Listeria monocytogenes}
Length = 255
Score = 28.2 bits (63), Expect = 2.6
Identities = 7/25 (28%), Positives = 10/25 (40%)
Query: 257 LRQEMERLKKENLSLRDKLSKFTDL 281
E + LK+ L S+ DL
Sbjct: 24 TYTENQHLKERLEELAQLESEVADL 48
>3sxn_A Enhanced intracellular surviVal protein; GNAT fold,
acetyltransferase, acetyl COA binding, transferas; HET:
COA; 2.03A {Mycobacterium smegmatis}
Length = 422
Score = 28.5 bits (63), Expect = 2.7
Identities = 5/23 (21%), Positives = 9/23 (39%)
Query: 4 RERSPSPSEPMSPLTISPPSPAD 26
P S ++P T+ + D
Sbjct: 12 SGLVPRGSHMITPRTLHTITDDD 34
Score = 28.5 bits (63), Expect = 2.7
Identities = 5/23 (21%), Positives = 9/23 (39%)
Query: 195 RERSPSPSEPMSPLTISPPSPAD 217
P S ++P T+ + D
Sbjct: 12 SGLVPRGSHMITPRTLHTITDDD 34
>1zhc_A Hypothetical protein HP1242; A-helical protein, unknown function;
NMR {Helicobacter pylori}
Length = 76
Score = 26.2 bits (58), Expect = 3.9
Identities = 6/17 (35%), Positives = 12/17 (70%)
Query: 259 QEMERLKKENLSLRDKL 275
E+ +KK+ L L+D++
Sbjct: 44 AEVSHMKKQKLKLKDEI 60
>3bbn_E Ribosomal protein S5; small ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 308
Score = 27.5 bits (61), Expect = 4.3
Identities = 14/146 (9%), Positives = 30/146 (20%), Gaps = 21/146 (14%)
Query: 147 SQTSTGGAPTPAANLTGGHTTTTLQNVTSTISGRLSPCGSSQASVMTKRERSPSPSEPMS 206
+ P ++++ S S R P P
Sbjct: 15 TTLHRRIPLFPTTTTLLSLSSSSKPLFLSLSSTRSFPTHLYCIKKDDIDITFFEQDNPDE 74
Query: 207 PLTISPPSPADSTLSFTSSTRDFDPRSRTFSDE-----------------ELKPQPMVKK 249
+T PP + + + D +E L
Sbjct: 75 EITFDPPEKPEGYIPPRA----VDEPPFESEEEIALAYEELYGAAYSGESLLGNDVYAMD 130
Query: 250 SRKQNMGLRQEMERLKKENLSLRDKL 275
S+ + + +K + +
Sbjct: 131 SKIKKATGFGSKSKKEKIRDGFEENV 156
>3jte_A Response regulator receiver protein; structural genomics, nysgrc,
response regulator receiver domain, target 11226E,
PSI-2; 1.90A {Clostridium thermocellum atcc 27405}
Length = 143
Score = 26.7 bits (60), Expect = 4.9
Identities = 3/18 (16%), Positives = 7/18 (38%)
Query: 260 EMERLKKENLSLRDKLSK 277
++L EN + +
Sbjct: 122 NRKKLLMENERMTQEGHH 139
>1yje_A Orphan nuclear receptor NR4A1; NGFI-B, NUR77, ligand-binding
domain, novel coregulator interface, cell-specific;
2.40A {Rattus norvegicus} PDB: 2qw4_A
Length = 264
Score = 27.4 bits (61), Expect = 5.0
Identities = 17/100 (17%), Positives = 32/100 (32%), Gaps = 7/100 (7%)
Query: 185 GSSQASVMTKRERSPSPSEPMSPLTISPPSPADSTLSFTSSTRDFDPRSRTFSDEELKPQ 244
GSS P S P SP + S + D P + + +
Sbjct: 1 GSSHHHHHHSSGLVPRGSHMQPP----DASPTNLLTSLIRAHLDSGPNTAKLDYSKFQEL 56
Query: 245 PMVKKSRKQNMGLRQEMERLKKENLSLRD---KLSKFTDL 281
+ + ++ ++Q + L +R K+ F +L
Sbjct: 57 VLPRFGKEDAGDVQQFYDLLSGSLDVIRKWAEKIPGFIEL 96
>3aei_A Prefoldin beta subunit 2; double helix, coiled coil, chaperone;
1.70A {Thermococcus SP}
Length = 99
Score = 26.3 bits (57), Expect = 5.1
Identities = 15/52 (28%), Positives = 27/52 (51%), Gaps = 2/52 (3%)
Query: 234 RTFSD--EELKPQPMVKKSRKQNMGLRQEMERLKKENLSLRDKLSKFTDLLS 283
R FSD E+ ++ + + ++E+E+LKK + ++LSK LS
Sbjct: 48 RAFSDLLVEITKDEAIEHIERSRLVYKREIEKLKKREKEIMEELSKLRAPLS 99
>3s9g_A Protein hexim1; cyclin T-binding domain (TBD), cyclin T1/P-TEFB/7SK
snRNA, N transcription; 2.10A {Homo sapiens} PDB: 2gd7_A
Length = 104
Score = 26.3 bits (57), Expect = 6.3
Identities = 11/38 (28%), Positives = 19/38 (50%)
Query: 237 SDEELKPQPMVKKSRKQNMGLRQEMERLKKENLSLRDK 274
DE + + K+ + L E++RL+ ENL L +
Sbjct: 50 EDENNRLRLESKRLDARVRELELELDRLRAENLQLLTE 87
>1twf_A B220, DNA-directed RNA polymerase II largest subunit; transcription,
mRNA, multiprotein complex; HET: UTP; 2.30A
{Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB: 1i3q_A
1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A 1r9s_A*
1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A* 1twh_A*
1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ...
Length = 1733
Score = 27.4 bits (60), Expect = 7.2
Identities = 26/102 (25%), Positives = 38/102 (37%), Gaps = 6/102 (5%)
Query: 136 SDNGIPVDGNTSQTSTGGAPTPAANLTGGHTTTTLQNVTSTISGRLSPCGSSQASVMTKR 195
S + P + S TS +PT T+ + TS SP S + +
Sbjct: 1574 SPSYSPTSPSYSPTSPSYSPTSP----SYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPT 1629
Query: 196 ERSPSPSEPMSPLTISPPSPADSTLSFTSSTRDFDPRSRTFS 237
S SP+ P T SP + S TS + P S ++S
Sbjct: 1630 SPSYSPTSPSYSPTSPSYSPTSPSYSPTSPA--YSPTSPSYS 1669
Score = 27.0 bits (59), Expect = 8.4
Identities = 21/107 (19%), Positives = 40/107 (37%), Gaps = 4/107 (3%)
Query: 134 FLSDNGIPVDGNTSQTSTGGAPTPAANLTGGHTTTTLQNVTSTISGRLSPCGSSQASVMT 193
+ +++G+ + +P + + SP G+ + +
Sbjct: 1473 YSNESGLVNADLDVKDELMFSPLVDSGSNDAMAGGFTAYGGADYGEATSPFGAYGEAPTS 1532
Query: 194 KRERSPSPS-EPMSPLTISPPSPADSTLS--FTSSTRDFDPRSRTFS 237
SP P SP T SP SPA S S ++ ++ + P S ++S
Sbjct: 1533 PGFGVSSPGFSPTSP-TYSPTSPAYSPTSPSYSPTSPSYSPTSPSYS 1578
>1qkk_A DCTD, C4-dicarboxylate transport transcriptional regulatory
protein; receiver domain, 2-component signal
transduction; 1.7A {Sinorhizobium meliloti} SCOP:
c.23.1.1 PDB: 1l5z_A 1l5y_A
Length = 155
Score = 26.4 bits (59), Expect = 8.0
Identities = 9/23 (39%), Positives = 11/23 (47%)
Query: 260 EMERLKKENLSLRDKLSKFTDLL 282
E RL EN SLR ++ L
Sbjct: 120 EKRRLVMENRSLRRAAEAASEGL 142
>1goj_A Kinesin, kinesin heavy chain; motor protein, ATPase; HET: ADP; 2.3A
{Neurospora crassa} SCOP: c.37.1.9
Length = 355
Score = 26.8 bits (60), Expect = 8.4
Identities = 12/54 (22%), Positives = 23/54 (42%), Gaps = 6/54 (11%)
Query: 214 SPADSTLSFTSSTRDFDPRSRTFSDEELKPQPMVKKSRKQNMGLRQEMERLKKE 267
SP+ + T ST F R+++ +K + V L+Q + + K +
Sbjct: 308 SPSSYNDAETLSTLRFGMRAKS-----IKNKAKVNAELSPAE-LKQMLAKAKTQ 355
>3hnw_A Uncharacterized protein; coiled-coil, structural genomics, PSI-2,
protein structure initiative, midwest center for
structural genomics, MCSG; 2.20A {Eubacterium eligens}
Length = 138
Score = 26.1 bits (57), Expect = 8.9
Identities = 8/47 (17%), Positives = 17/47 (36%)
Query: 237 SDEELKPQPMVKKSRKQNMGLRQEMERLKKENLSLRDKLSKFTDLLS 283
+D+ K + M +E+ LK E ++ + K +
Sbjct: 67 ADDYFKAKKMADSLSLDIENKDKEIYDLKHELIAAQIKAESSAKEIK 113
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
0.306 0.123 0.348
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: 3,929,955
Number of extensions: 214615
Number of successful extensions: 482
Number of sequences better than 10.0: 1
Number of HSP's gapped: 476
Number of HSP's successfully gapped: 56
Length of query: 283
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 191
Effective length of database: 4,133,061
Effective search space: 789414651
Effective search space used: 789414651
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (22.0 bits)
S2: 57 (26.2 bits)