RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12460
(171 letters)
>2bay_A PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin ligase, E3
ligase; 1.50A {Saccharomyces cerevisiae} SCOP: g.44.1.2
PDB: 1n87_A
Length = 61
Score = 81.2 bits (201), Expect = 3e-21
Identities = 24/52 (46%), Positives = 38/52 (73%)
Query: 11 SNEVPEHPVVSPISGSVFEKRLIEKYIKENGTDPINAERLTLEQLIDIKVSP 62
S +VP PV+SP S ++FEK L+E+Y+K+ G DPI E L++E++++I S
Sbjct: 9 SGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEIVEIVPSA 60
>3m62_A Ubiquitin conjugation factor E4; armadillo-like repeats, UBL
conjugation pathway, DNA damage, nucleus,
phosphoprotein; HET: 1PE; 2.40A {Saccharomyces
cerevisiae} PDB: 3m63_A* 2qiz_A 2qj0_A
Length = 968
Score = 45.9 bits (108), Expect = 2e-06
Identities = 15/55 (27%), Positives = 26/55 (47%), Gaps = 7/55 (12%)
Query: 2 PIFGTKTVMSNEVPEHPVVSPISGSVFEKRLIEKYIKENGTDPINAERLTLEQLI 56
P+ T+M + PV+ P S ++ I+ ++ + TDP N L LE +
Sbjct: 895 PL--MYTIMKD-----PVILPASKMNIDRSTIKAHLLSDSTDPFNRMPLKLEDVT 942
>2kr4_A Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ring, E3 ligase,
UBL conjugation pathway; NMR {Mus musculus}
Length = 85
Score = 42.3 bits (100), Expect = 3e-06
Identities = 17/55 (30%), Positives = 30/55 (54%), Gaps = 8/55 (14%)
Query: 2 PIFGTKTVMSNEVPEHPVVSPISGSVFEKRLIEKYIKENGTDPINAERLTLEQLI 56
P+ T+M++ PV P SG+V ++ +I +++ + TDP N + LT L
Sbjct: 18 PL--MDTLMTD-----PVRLP-SGTVMDRSIILRHLLNSPTDPFNRQMLTESMLE 64
>2kre_A Ubiquitin conjugation factor E4 B; U-box domain, E3 ubiquitin
ligase, E4 polyubiquitin chain EL factor,
phosphoprotein, UBL conjugation pathway; NMR {Homo
sapiens} PDB: 3l1x_A 3l1z_B
Length = 100
Score = 42.0 bits (99), Expect = 5e-06
Identities = 16/55 (29%), Positives = 30/55 (54%), Gaps = 8/55 (14%)
Query: 2 PIFGTKTVMSNEVPEHPVVSPISGSVFEKRLIEKYIKENGTDPINAERLTLEQLI 56
P+ T+M++ PV P SG++ ++ +I +++ + TDP N + LT L
Sbjct: 33 PL--MDTLMTD-----PVRLP-SGTIMDRSIILRHLLNSPTDPFNRQTLTESMLE 79
>1wgm_A Ubiquitin conjugation factor E4A; ubiquitinating enzyme,
KIAA0126, structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Homo
sapiens} SCOP: g.44.1.2
Length = 98
Score = 42.1 bits (99), Expect = 6e-06
Identities = 17/55 (30%), Positives = 28/55 (50%), Gaps = 7/55 (12%)
Query: 2 PIFGTKTVMSNEVPEHPVVSPISGSVFEKRLIEKYIKENGTDPINAERLTLEQLI 56
PI T+M + PVV P S ++ I +++ + TDP N LT++Q+
Sbjct: 26 PI--MSTLMCD-----PVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIR 73
>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 = 42.5 bits (99), Expect = 3e-05
Identities = 23/140 (16%), Positives = 45/140 (32%), Gaps = 28/140 (20%)
Query: 12 NEVPEHPVVSPISGSVFEKRLIEKYIKENGTDPINAERLTLEQLIDIKVSPVTKPKPPQA 71
+V + P S+ K I+ I D ++ L+ + V K
Sbjct: 36 KDVQDMP------KSILSKEEIDHIIMSK--DAVSGTLRLFWTLLSKQEEMVQK------ 81
Query: 72 TSIPAILKMLQDEWDAIMLHSFTQRQQLQTARQELSHALYQHDAACRVIARLTK------ 125
+ ++L+ + +M S + +Q Q + + + Q D K
Sbjct: 82 ----FVEEVLRINYKFLM--SPIKTEQRQPSMMTRMY-IEQRDRLYNDNQVFAKYNVSRL 134
Query: 126 -EVTAAREALATLKPQAGIA 144
R+AL L+P +
Sbjct: 135 QPYLKLRQALLELRPAKNVL 154
Score = 38.7 bits (89), Expect = 6e-04
Identities = 26/168 (15%), Positives = 53/168 (31%), Gaps = 71/168 (42%)
Query: 1 MPIFGTKTVMSNEV-PEHPVVSPISGSVFEKRLIEKYIKENGTDPINAERLTLEQLIDIK 59
+ G KT ++ +V + V + +F ++
Sbjct: 158 VLGSG-KTWVALDVCLSYKVQCKMDFKIF-------WLN--------------------- 188
Query: 60 VSPVTKPKPPQATSIPAILKMLQD-------EWDAIMLHSFTQRQQLQTARQELSHAL-- 110
+ P+ +L+MLQ W + HS + ++ + + EL L
Sbjct: 189 LKNCNSPE--------TVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKS 240
Query: 111 --YQH-----------------DAACRVIARLT---KEVTAAREALAT 136
Y++ + +C+++ LT K+VT A T
Sbjct: 241 KPYENCLLVLLNVQNAKAWNAFNLSCKIL--LTTRFKQVTDFLSAATT 286
Score = 31.4 bits (70), Expect = 0.15
Identities = 17/68 (25%), Positives = 28/68 (41%), Gaps = 6/68 (8%)
Query: 31 RLIEKYIKENGTDPINAERLTLEQLIDIKVSPVTKPKPPQATSIPAILKMLQDEWDAIML 90
+ + YI +N DP ERL + ++D + T + I L E +AI
Sbjct: 528 KFYKPYICDN--DPKY-ERL-VNAILDFLPKIEENLICSKYTDLLRI--ALMAEDEAIFE 581
Query: 91 HSFTQRQQ 98
+ Q Q+
Sbjct: 582 EAHKQVQR 589
>2f42_A STIP1 homology and U-box containing protein 1; chaperone; 2.50A
{Danio rerio} PDB: 2c2v_S 2oxq_C
Length = 179
Score = 38.1 bits (88), Expect = 4e-04
Identities = 16/56 (28%), Positives = 30/56 (53%), Gaps = 9/56 (16%)
Query: 2 PIFGTKTVMSNEVPEHPVVSPISGSVFEKRLIEKYIKENG-TDPINAERLTLEQLI 56
I + +M P ++P SG ++++ IE++++ G DP+ LT +QLI
Sbjct: 110 KI--SFELMRE-----PCITP-SGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQLI 157
>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3
ligase, ubiquitinylation, TPR, heat-shock protein
complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2
Length = 281
Score = 38.0 bits (88), Expect = 6e-04
Identities = 16/48 (33%), Positives = 30/48 (62%), Gaps = 2/48 (4%)
Query: 10 MSNEVPEHPVVSPISGSVFEKRLIEKYIKENG-TDPINAERLTLEQLI 56
+S E+ P ++P SG ++++ IE++++ G +P+ LT EQLI
Sbjct: 213 ISFELMREPCITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLI 259
>2yu4_A E3 SUMO-protein ligase NSE2; SP-ring domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 94
Score = 29.5 bits (66), Expect = 0.19
Identities = 11/41 (26%), Positives = 18/41 (43%), Gaps = 7/41 (17%)
Query: 2 PIFGTKTVMSNEVPEHPVVSPISGSVFEKRLIEKYIKENGT 42
PI TK M + PV + + G +E+ I + I+
Sbjct: 11 PI--TKEEM-----KKPVKNKVCGHTYEEDAIVRMIESRQK 44
>3pik_A Cation efflux system protein CUSC; beta-barrel, lipoprotein, outer
membrane; HET: UNL; 2.30A {Escherichia coli}
Length = 446
Score = 30.3 bits (69), Expect = 0.25
Identities = 10/52 (19%), Positives = 22/52 (42%), Gaps = 2/52 (3%)
Query: 96 RQQLQTARQELSHALYQHDAACRVIARLTKEVTAAREA--LATLKPQAGIAT 145
Q++Q A +E++ AL + I+ + + + + A Q G +
Sbjct: 350 EQKIQNAFKEVADALALRQSLNDQISAQQRYLASLQITLQRARALYQHGAVS 401
>1yc9_A VCEC, multidrug resistance protein; outer membrane protein,
multidrug resistanc membrane protein; HET: BOG; 1.80A
{Vibrio cholerae}
Length = 442
Score = 30.0 bits (68), Expect = 0.37
Identities = 14/52 (26%), Positives = 23/52 (44%), Gaps = 2/52 (3%)
Query: 96 RQQLQTARQELSHALYQHDAACRVIARLTKEVTAAREA--LATLKPQAGIAT 145
L A E++ + A I + + V A +A +AT + Q G+AT
Sbjct: 346 NGTLVQALHEIADVVTSSQALQARINKTEQAVQQAEQALHIATNRYQGGLAT 397
>3htk_C E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-ring, ring,
ATP-binding, chromosomal protein, coiled coil, DNA
damage; 2.31A {Saccharomyces cerevisiae}
Length = 267
Score = 29.9 bits (66), Expect = 0.38
Identities = 10/51 (19%), Positives = 25/51 (49%), Gaps = 4/51 (7%)
Query: 10 MSNEVPEHPVVSPISGSVFEKRLIEKYIKENGTD--PINA--ERLTLEQLI 56
++ + E P++S VF++ I+ Y++ T P A + +++ +
Sbjct: 186 ITCKPYEAPLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRDFV 236
>3lay_A Zinc resistance-associated protein; salmonella typhimurium L
structural genomics, center for structural genomics of
INFE diseases; 2.70A {Salmonella enterica subsp}
Length = 175
Score = 29.4 bits (65), Expect = 0.47
Identities = 17/84 (20%), Positives = 28/84 (33%), Gaps = 6/84 (7%)
Query: 82 QDEWDAIMLHSFTQ----RQQLQTARQELSHALYQHDAACRVIARLTKEVTAAREALATL 137
Q I +TQ RQQL + R E + L I + KE+ + + L
Sbjct: 73 QATAQKIYDDYYTQTSALRQQLISKRYEYNALLTASSPDTAKINAVAKEMESLGQKLDEQ 132
Query: 138 KPQAG--IATPTTIPQPSRLWGKF 159
+ + +A +G
Sbjct: 133 RVKRDVAMAQAGIPRGAGMGYGGC 156
>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 = 29.1 bits (64), Expect = 0.50
Identities = 7/22 (31%), Positives = 13/22 (59%), Gaps = 2/22 (9%)
Query: 95 QRQQLQTARQELSHALYQHDAA 116
++Q L+ + + S LY D+A
Sbjct: 18 EKQALK--KLQASLKLYADDSA 37
>3d5k_A OPRM, outer membrane protein OPRM; channel, beta-alpha-barrel,
antibiotic RES lipoprotein, palmitate, transmemb
transport; 2.40A {Pseudomonas aeruginosa} PDB: 1wp1_A
Length = 474
Score = 29.2 bits (66), Expect = 0.65
Identities = 12/52 (23%), Positives = 21/52 (40%), Gaps = 2/52 (3%)
Query: 96 RQQLQTARQELSHALYQHDAACRVIARLTKEVTAAREA--LATLKPQAGIAT 145
+ +QTA QE++ L + V A+ E LA + + G+
Sbjct: 359 EKAIQTAFQEVADGLAARGTFTEQLQAQRDLVKASDEYYQLADKRYRTGVDN 410
>3pm9_A Putative oxidoreductase; putative D-2-hydroxyglutarate
dehydrogenase, putative D-LACT dehydrogenase; HET: FAD;
2.57A {Rhodopseudomonas palustris}
Length = 476
Score = 28.7 bits (65), Expect = 0.96
Identities = 17/66 (25%), Positives = 29/66 (43%), Gaps = 7/66 (10%)
Query: 86 DAIMLHSFTQRQQLQTARQELSHAL------YQHDAACRVIARLTKEVTAAREALATLKP 139
DA + +S Q+Q R+E+S A +HD + +A + + + A A+ L P
Sbjct: 321 DAAIANSVQQQQAFWKLREEISPAQKPEGGSIKHDISVP-VAAVPQFIEQANAAVVALIP 379
Query: 140 QAGIAT 145
A
Sbjct: 380 GARPVP 385
>1u4q_A Spectrin alpha chain, brain; alpha spectrin, three repeats of
spectrin, alpha-helical linker region, 3-helix
coiled-coil, structural protein; 2.50A {Gallus gallus}
SCOP: a.7.1.1 a.7.1.1 a.7.1.1
Length = 322
Score = 28.3 bits (63), Expect = 1.2
Identities = 9/71 (12%), Positives = 25/71 (35%), Gaps = 4/71 (5%)
Query: 45 INAERLTLEQLIDIKVSPVTKPKPPQATSIPAILKMLQDEWDAIMLHSFTQRQQLQTARQ 104
+ A ++ ++D ++ I L D W + + + Q+L+ +
Sbjct: 158 LAAHEPAIQGVLDTGKK-LSDDNTIGKEEIQQRLAQFVDHWKELKQLAAARGQRLE---E 213
Query: 105 ELSHALYQHDA 115
L + + +
Sbjct: 214 SLEYQQFVANV 224
>3edu_A Beta-I spectrin, spectrin beta chain, erythrocyte; ankyrin,
ankyrin-binding domain, actin capping, AC binding,
cytoskeleton, disease mutation; 2.10A {Homo sapiens}
PDB: 3f57_A
Length = 218
Score = 28.0 bits (62), Expect = 1.3
Identities = 10/60 (16%), Positives = 23/60 (38%)
Query: 45 INAERLTLEQLIDIKVSPVTKPKPPQATSIPAILKMLQDEWDAIMLHSFTQRQQLQTARQ 104
++ + ++Q D+ T +A +I + + W A++ +R QL
Sbjct: 156 LHLLGVQVQQFQDVATRLQTAYAGEKAEAIQNKEQEVSAAWQALLDACAGRRTQLVDTAD 215
>3apz_A Geranyl diphosphate synthase; prenyltransferase, all alpha-helices
fold, chroloplast, TRAN isoprenoid biosynthetic process;
2.60A {Arabidopsis thaliana} PDB: 3aq0_A*
Length = 348
Score = 28.1 bits (63), Expect = 1.6
Identities = 8/66 (12%), Positives = 20/66 (30%), Gaps = 5/66 (7%)
Query: 75 PAILKMLQ-DEWDAIMLHSFTQRQQLQTARQELSHALYQHDAACRVIARLTKEVTAAREA 133
P + M + + ++ + + A + L + R + A A
Sbjct: 262 PILFAMEEFPQLREVVDQVEKDPRNVDIALE----YLGKSKGIQRARELAMEHANLAAAA 317
Query: 134 LATLKP 139
+ +L
Sbjct: 318 IGSLPE 323
>1u5p_A Spectrin alpha chain, brain; alpha spectrin, two repeats of
spectrin, alpha-helical linker region, 3-helix coiled
coil, structural protein; 2.00A {Gallus gallus} SCOP:
a.7.1.1 a.7.1.1
Length = 216
Score = 27.6 bits (61), Expect = 1.8
Identities = 8/60 (13%), Positives = 22/60 (36%), Gaps = 1/60 (1%)
Query: 45 INAERLTLEQLIDIKVSPVTKPKPPQATSIPAILKMLQDEWDAIMLHSFTQRQQLQTARQ 104
+ A ++ ++D ++ I L D W + + + Q+L+ + +
Sbjct: 158 LAAHEPAIQGVLD-TGKKLSDDNTIGKEEIQQRLAQFVDHWKELKQLAAARGQRLEESLE 216
>3edv_A Spectrin beta chain, brain 1; spectrin repeat, coiled coil, actin
capping, actin-binding, alternative splicing,
calmodulin-binding, cytoplasm; 1.95A {Homo sapiens}
Length = 323
Score = 27.6 bits (61), Expect = 1.9
Identities = 12/86 (13%), Positives = 28/86 (32%), Gaps = 13/86 (15%)
Query: 33 IEKYIKENGTDPINAERLTLEQLIDIKVSPVTKPKPPQATSIPAILKMLQDEWDAIMLHS 92
+ G + ++ ++LI+ A +I L + W ++
Sbjct: 51 FARDTGNIGQERVDTVNHLADELINSG--------HSDAATIAEWKDGLNEAWADLLELI 102
Query: 93 FTQRQQLQTARQELSHALYQHDAACR 118
T+ Q L S+ L++ +
Sbjct: 103 DTRTQIL-----AASYELHKFYHDAK 123
Score = 25.7 bits (56), Expect = 8.0
Identities = 9/60 (15%), Positives = 20/60 (33%)
Query: 45 INAERLTLEQLIDIKVSPVTKPKPPQATSIPAILKMLQDEWDAIMLHSFTQRQQLQTARQ 104
I A + QL + +A I + + W +++ ++R +L
Sbjct: 161 IQALGTQVRQLQEDAARLQAAYAGDKADDIQKRENEVLEAWKSLLDACESRRVRLVDTGD 220
>1hci_A Alpha-actinin 2; triple-helix coiled coil, contractIle protein,
muscle, Z- LINE, actin-binding protein; 2.8A {Homo
sapiens} SCOP: a.7.1.1 a.7.1.1 a.7.1.1 a.7.1.1
Length = 476
Score = 27.2 bits (59), Expect = 3.3
Identities = 12/70 (17%), Positives = 25/70 (35%)
Query: 67 KPPQATSIPAILKMLQDEWDAIMLHSFTQRQQLQTARQELSHALYQHDAACRVIARLTKE 126
A ++ + + D+WD + + +R+ L+ + L H + A
Sbjct: 202 DYHDAVNVNDRCQKICDQWDRLGTLTQKRREALERMEKLLETIDQLHLEFAKRAAPFNNW 261
Query: 127 VTAAREALAT 136
+ A E L
Sbjct: 262 MEGAMEDLQD 271
>3v97_A Ribosomal RNA large subunit methyltransferase L; YCBY, RNA
methyltransferase, ribosome RNA, SAH, RLML; HET: SAH
OSU; 2.20A {Escherichia coli} PDB: 3v8v_A*
Length = 703
Score = 26.9 bits (60), Expect = 4.2
Identities = 13/54 (24%), Positives = 19/54 (35%), Gaps = 7/54 (12%)
Query: 46 NAERLTLEQLIDIKVSPVTKPKPPQATSIPAIL-------KMLQDEWDAIMLHS 92
NA + +LI +V V + P + + L E I LHS
Sbjct: 275 NARLAGIGELITFEVKDVAQLTNPLPKGPYGTVLSNPPYGERLDSEPALIALHS 328
>2di3_A Bacterial regulatory proteins, GNTR family; helix-turn-helix,
transcription; 2.05A {Corynebacterium glutamicum}
Length = 239
Score = 26.6 bits (59), Expect = 4.3
Identities = 10/64 (15%), Positives = 22/64 (34%), Gaps = 2/64 (3%)
Query: 70 QATSIPAILKMLQDEWDAIMLHSFTQRQQLQTARQELSHALYQHDAACRVIARLTKEVTA 129
+ P I +++ ++ H+ + + L R + +H A + E T
Sbjct: 153 KGAENPLISTLMEALRLSVADHTVARARALPDWRATSARLQKEHRAILAALRA--GESTV 210
Query: 130 AREA 133
A
Sbjct: 211 AATL 214
>1s35_A Beta-I spectrin, spectrin beta chain, erythrocyte; two repeats of
spectrin, alpha helical linker region, 3- helix
coiled-coils, beta spectrin; 2.40A {Homo sapiens} SCOP:
a.7.1.1 a.7.1.1
Length = 214
Score = 26.4 bits (58), Expect = 4.4
Identities = 3/38 (7%), Positives = 12/38 (31%)
Query: 67 KPPQATSIPAILKMLQDEWDAIMLHSFTQRQQLQTARQ 104
+ I +++++D + L+ +
Sbjct: 177 GNLYSDKIKEKVQLIEDRHRKNNEKAQEASVLLRDNLE 214
>3pdy_A Plectin; cytoskeleton, plakin, intermediate filament, spectrin
repeat structural protein, crosslinking; 2.22A {Homo
sapiens}
Length = 210
Score = 26.5 bits (58), Expect = 4.4
Identities = 6/56 (10%), Positives = 21/56 (37%), Gaps = 1/56 (1%)
Query: 45 INAERLTLEQLIDIKVSPVTKPKPPQATSIPAILKMLQDEWDAIMLHSFTQRQQLQ 100
+ + +++L + + + P ++ + LQ +W ++ L+
Sbjct: 154 LELKEKKIKELQN-AGDRLLREDHPARPTVESFQAALQTQWSWMLQLCCCIEAHLK 208
>3fb2_A Spectrin alpha chain, brain spectrin; non-erythroid alpha chain
alpha-II spectrin, fordrin alpha chain, sptan1,
SPTA2_human, NESG, HR5563A; 2.30A {Homo sapiens}
Length = 218
Score = 26.4 bits (58), Expect = 5.3
Identities = 13/71 (18%), Positives = 21/71 (29%), Gaps = 4/71 (5%)
Query: 45 INAERLTLEQLIDIKVSPVTKPKPPQATSIPAILKMLQDEWDAIMLHSFTQRQQLQTARQ 104
I+A T + + + I L +L E + +R L Q
Sbjct: 62 IDARAGTFQAFEQFGQQLLAHG-HYASPEIKQKLDILDQERADLEKAWVQRRMMLD---Q 117
Query: 105 ELSHALYQHDA 115
L L+ D
Sbjct: 118 CLELQLFHRDC 128
>2iak_A Bullous pemphigoid antigen 1, isoform 5; triple helical bundle,
spectrin repeat, cell adhesion; 3.00A {Mus musculus}
Length = 224
Score = 26.1 bits (57), Expect = 5.9
Identities = 8/34 (23%), Positives = 13/34 (38%)
Query: 67 KPPQATSIPAILKMLQDEWDAIMLHSFTQRQQLQ 100
P +I A +Q +W I+ Q +Q
Sbjct: 190 NHPARLTIEAYRAAMQTQWSWILQLCQCVEQHIQ 223
>3ldg_A Putative uncharacterized protein SMU.472; YPSC, methyltransferase,
transferase; HET: SAH; 1.96A {Streptococcus mutans}
Length = 384
Score = 26.1 bits (58), Expect = 6.6
Identities = 6/24 (25%), Positives = 11/24 (45%)
Query: 46 NAERLTLEQLIDIKVSPVTKPKPP 69
NA + LE ++ +K + K
Sbjct: 275 NAREVGLEDVVKLKQMRLQDFKTN 298
>3lbx_A Spectrin alpha chain, erythrocyte; tetramer, complex, three-helix
bundle, alpha helix repeat, helical linker, actin
capping; 2.80A {Homo sapiens} PDB: 1owa_A
Length = 161
Score = 25.7 bits (56), Expect = 6.7
Identities = 7/36 (19%), Positives = 14/36 (38%)
Query: 67 KPPQATSIPAILKMLQDEWDAIMLHSFTQRQQLQTA 102
A ++ L+ WD ++ + + QL A
Sbjct: 125 GHSAHEETKAHIEELRHLWDLLLELTLEKGDQLLRA 160
>3k0b_A Predicted N6-adenine-specific DNA methylase; methylase,PF01170,
putative RNA methylase, PSI,MCSG, structu genomics;
1.50A {Listeria monocytogenes str}
Length = 393
Score = 26.1 bits (58), Expect = 6.9
Identities = 6/24 (25%), Positives = 8/24 (33%)
Query: 46 NAERLTLEQLIDIKVSPVTKPKPP 69
NA L LI + V +
Sbjct: 282 NAVEAGLGDLITFRQLQVADFQTE 305
>3oql_A TENA homolog; transcriptional activator, structural genomics, joint
center structural genomics, JCSG, protein structure
initiative; 2.54A {Pseudomonas syringae PV}
Length = 262
Score = 25.9 bits (56), Expect = 7.3
Identities = 8/48 (16%), Positives = 18/48 (37%), Gaps = 8/48 (16%)
Query: 70 QATSIPA----ILKMLQDEWDAIMLHSFTQRQQLQTARQELSHALYQH 113
+A+S PA ++ ++ H Q+ +LS + +
Sbjct: 14 EASSYPAWAQQLINDCSPAKARVVEHELYQQ----MRDAKLSPQIMRQ 57
>1quu_A Human skeletal muscle alpha-actinin 2; triple-helix coiled coil,
contractIle protein; 2.50A {Homo sapiens} SCOP: a.7.1.1
a.7.1.1
Length = 250
Score = 25.8 bits (56), Expect = 7.4
Identities = 12/69 (17%), Positives = 25/69 (36%)
Query: 67 KPPQATSIPAILKMLQDEWDAIMLHSFTQRQQLQTARQELSHALYQHDAACRVIARLTKE 126
A ++ + + D+WD + + +R+ L+ + L H + A
Sbjct: 85 DYHDAVNVNDRCQKICDQWDRLGTLTQKRREALERMEKLLETIDQLHLEFAKRAAPFNNW 144
Query: 127 VTAAREALA 135
+ A E L
Sbjct: 145 MEGAMEDLQ 153
>3tm4_A TRNA (guanine N2-)-methyltransferase TRM14; rossmann fold, thump
domain, tRNA methyltransferase; HET: SAM; 1.95A
{Pyrococcus furiosus} PDB: 3tlj_A* 3tm5_A*
Length = 373
Score = 25.9 bits (57), Expect = 8.1
Identities = 4/24 (16%), Positives = 6/24 (25%)
Query: 46 NAERLTLEQLIDIKVSPVTKPKPP 69
NA + I T+
Sbjct: 260 NALAAGVLDKIKFIQGDATQLSQY 283
>3ldu_A Putative methylase; structural genomics, PSI-2, protein structure
initiative, midwest center for structural genomics,
MCSG; HET: MSE GTP; 1.70A {Clostridium difficile}
Length = 385
Score = 25.7 bits (57), Expect = 8.3
Identities = 7/24 (29%), Positives = 12/24 (50%)
Query: 46 NAERLTLEQLIDIKVSPVTKPKPP 69
NAE +++ I+ V T+ K
Sbjct: 276 NAEIAGVDEYIEFNVGDATQFKSE 299
>2j3t_D Trafficking protein particle complex subunit 4; trapp, palmitate,
transport, lipoprotein, ER-golgi transport apparatus,
protein transport; HET: PLM; 2.4A {Homo sapiens} PDB:
2zmv_A 2jsn_A
Length = 219
Score = 25.5 bits (55), Expect = 8.8
Identities = 6/27 (22%), Positives = 13/27 (48%), Gaps = 2/27 (7%)
Query: 6 TKTVMSNEVPEHPVVSPISGSVFEKRL 32
+ + N P + + PI +F++ L
Sbjct: 178 SDFALKN--PFYSLEMPIRCELFDQNL 202
>1z3e_A Regulatory protein SPX; bacterial transcription regulation,
disulfide stress; 1.50A {Bacillus subtilis} SCOP:
c.47.1.12 PDB: 3gfk_A 3ihq_A
Length = 132
Score = 24.9 bits (55), Expect = 9.6
Identities = 12/73 (16%), Positives = 26/73 (35%), Gaps = 15/73 (20%)
Query: 35 KYIKENGTDPINAERLTLEQLIDIKVSPVTKPKPPQATSIPAILKMLQDEWDAIMLHSFT 94
+++E+ +I P++ + I IL+M +D D I+
Sbjct: 19 AWLEEHEIPF---------VERNIFSEPLSIDE------IKQILRMTEDGTDEIISTRSK 63
Query: 95 QRQQLQTARQELS 107
Q+L + +
Sbjct: 64 VFQKLNVNVESMP 76
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
0.318 0.130 0.380
Gapped
Lambda K H
0.267 0.0496 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,594,348
Number of extensions: 147012
Number of successful extensions: 500
Number of sequences better than 10.0: 1
Number of HSP's gapped: 497
Number of HSP's successfully gapped: 55
Length of query: 171
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 84
Effective length of database: 4,272,666
Effective search space: 358903944
Effective search space used: 358903944
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.1 bits)