RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9536
(287 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 = 40.4 bits (94), Expect = 6e-04
Identities = 34/202 (16%), Positives = 62/202 (30%), Gaps = 80/202 (39%)
Query: 111 KFLVFFFQRLRRNETGLYED-------EFPFISPCGRERNFIRCDD-------------T 150
KFL + + ++ G ++ EF E ++ +D T
Sbjct: 63 KFLGYVSSLVEPSKVGQFDQVLNLCLTEF--------ENCYLEGNDIHALAAKLLQENDT 114
Query: 151 PVVYTH-VITTPEGEFFCHNHAGDELRHPFD---PSKIYMSLDTGR-------------- 192
+V T +I + A + PFD S ++ ++ G
Sbjct: 115 TLVKTKELIKN----YI---TARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTD 167
Query: 193 --------IYHPTTSQYGSVALIQSKTAIELSKLLQFRNGETSAPTHIVWGEREVELDL- 243
+Y T LI+ +A LS+L++ A G L++
Sbjct: 168 DYFEELRDLY--QTYHVLVGDLIKF-SAETLSELIR---TTLDAEKVFTQG-----LNIL 216
Query: 244 EWIRREEDEEKTETRKKDEDVL 265
EW+ + D+D L
Sbjct: 217 EWLENPSN-------TPDKDYL 231
Score = 33.9 bits (77), Expect = 0.061
Identities = 33/202 (16%), Positives = 59/202 (29%), Gaps = 69/202 (34%)
Query: 63 LNVKGISYVQGQSPEPNRREYFYYIDH-NGMLFLDDA---RMKNFTSCF------KEKKF 112
L++ ++ Q Q Y++ N L + N +
Sbjct: 339 LSISNLTQEQVQD----------YVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQS--- 385
Query: 113 LVFFFQRLRRN--ETGLYEDEFPFISPCGRERNFIRCDDTPVVYTH--VITTPEGEFFCH 168
L LR+ +GL + PF ER + +P F H
Sbjct: 386 LYGLNLTLRKAKAPSGLDQSRIPF-----SER-------KLKFSNRFLPVASP---F--H 428
Query: 169 NH----AGDELRHPFDPSKIYMSLDTGR----IYHPTT-----SQYGSVA--LIQSKT-- 211
+H A D + D K +S + +Y GS++ ++
Sbjct: 429 SHLLVPASDLINK--DLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRL 486
Query: 212 AIELSKLLQFRNGETSAPTHIV 233
++ QF+ THI+
Sbjct: 487 PVKWETTTQFK------ATHIL 502
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 37.8 bits (87), Expect = 0.002
Identities = 11/53 (20%), Positives = 22/53 (41%), Gaps = 10/53 (18%)
Query: 244 EWIRREED---EEKTETRKKDEDVL----GKEKEN--KKKKKKKKKKEKKNRR 287
+W R E+ +E K E K+ E +++ ++ +K + NR
Sbjct: 89 KW-REEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRI 140
Score = 31.3 bits (70), Expect = 0.20
Identities = 8/40 (20%), Positives = 19/40 (47%), Gaps = 1/40 (2%)
Query: 247 RREEDEEKTETRKKDEDVLGKEKENKKKKKKKKKKEKKNR 286
+E E + R++ L +E + K +++ +EK +
Sbjct: 80 LTQEPESIRKWREEQRKRL-QELDAASKVMEQEWREKAKK 118
Score = 31.3 bits (70), Expect = 0.21
Identities = 13/61 (21%), Positives = 23/61 (37%), Gaps = 4/61 (6%)
Query: 214 ELSKLLQFRNGETSAPTHIVWGEREVELDLEW-IRREEDEEKT--ETRKKDEDVLGKEKE 270
E K LQ + + + + +L+ EW R+ E EK R D+ +
Sbjct: 93 EQRKRLQELDAASKVMEQEWREKAKKDLE-EWNQRQSEQVEKNKINNRIADKAFYQQPDA 151
Query: 271 N 271
+
Sbjct: 152 D 152
>1b6a_A Methionine aminopeptidase; angiogenesis inhibitor; HET: TN4; 1.60A
{Homo sapiens} SCOP: a.4.5.25 d.127.1.1 PDB: 1qzy_A*
1boa_A* 1kq0_A 1kq9_A 1bn5_A* 1b59_A* 1yw9_A* 1r5g_A*
1r5h_A* 1r58_A* 1yw8_A* 1yw7_A* 2adu_A* 2ea2_A* 2ea4_A*
2ga2_A* 2oaz_A*
Length = 478
Score = 35.3 bits (81), Expect = 0.022
Identities = 14/52 (26%), Positives = 27/52 (51%)
Query: 235 GEREVELDLEWIRREEDEEKTETRKKDEDVLGKEKENKKKKKKKKKKEKKNR 286
++E ++ + R+ + E +++DED + + KKKKK+KK R
Sbjct: 56 PDKESGASVDEVARQLERSALEDKERDEDDEDGDGDGDGATGKKKKKKKKKR 107
Score = 34.1 bits (78), Expect = 0.051
Identities = 15/64 (23%), Positives = 28/64 (43%)
Query: 222 RNGETSAPTHIVWGEREVELDLEWIRREEDEEKTETRKKDEDVLGKEKENKKKKKKKKKK 281
G ++A E +D + E + + R +D++ + + KKKKKKK
Sbjct: 45 SKGPSAAGEQEPDKESGASVDEVARQLERSALEDKERDEDDEDGDGDGDGATGKKKKKKK 104
Query: 282 EKKN 285
+K+
Sbjct: 105 KKRG 108
Score = 31.4 bits (71), Expect = 0.33
Identities = 12/37 (32%), Positives = 16/37 (43%)
Query: 248 REEDEEKTETRKKDEDVLGKEKENKKKKKKKKKKEKK 284
R E+K ++ + KKKKKKKKK
Sbjct: 73 RSALEDKERDEDDEDGDGDGDGATGKKKKKKKKKRGP 109
Score = 31.4 bits (71), Expect = 0.37
Identities = 14/38 (36%), Positives = 21/38 (55%)
Query: 247 RREEDEEKTETRKKDEDVLGKEKENKKKKKKKKKKEKK 284
R ++++ + +D D G KKKKKKKKK+ K
Sbjct: 73 RSALEDKERDEDDEDGDGDGDGATGKKKKKKKKKRGPK 110
Score = 31.0 bits (70), Expect = 0.43
Identities = 16/46 (34%), Positives = 21/46 (45%)
Query: 238 EVELDLEWIRREEDEEKTETRKKDEDVLGKEKENKKKKKKKKKKEK 283
EV LE E+ E + D D G + KKKKKKK+ +
Sbjct: 66 EVARQLERSALEDKERDEDDEDGDGDGDGATGKKKKKKKKKRGPKV 111
Score = 31.0 bits (70), Expect = 0.48
Identities = 13/35 (37%), Positives = 18/35 (51%)
Query: 250 EDEEKTETRKKDEDVLGKEKENKKKKKKKKKKEKK 284
ED+E+ E + + KKKKKKKK+ K
Sbjct: 77 EDKERDEDDEDGDGDGDGATGKKKKKKKKKRGPKV 111
Score = 28.7 bits (64), Expect = 2.3
Identities = 15/59 (25%), Positives = 24/59 (40%)
Query: 223 NGETSAPTHIVWGEREVELDLEWIRREEDEEKTETRKKDEDVLGKEKENKKKKKKKKKK 281
E + E +L+ + +E +E E D D +K+ KKKKK+ K
Sbjct: 53 EQEPDKESGASVDEVARQLERSALEDKERDEDDEDGDGDGDGATGKKKKKKKKKRGPKV 111
Score = 27.2 bits (60), Expect = 7.4
Identities = 9/35 (25%), Positives = 16/35 (45%)
Query: 251 DEEKTETRKKDEDVLGKEKENKKKKKKKKKKEKKN 285
+ + R++ +E KK++KKKK K
Sbjct: 16 GDLDPDDREEGAASTAEEAAKKKRRKKKKSKGPSA 50
>2fr5_A Cytidine deaminase; tetrahydrouridine, protein-inhibitor COM
alternate conformation of Arg68, hydrolase; HET: TYU;
1.48A {Mus musculus} SCOP: c.97.1.1 PDB: 1zab_A* 2fr6_A*
1mq0_A*
Length = 146
Score = 34.1 bits (78), Expect = 0.022
Identities = 17/52 (32%), Positives = 21/52 (40%), Gaps = 7/52 (13%)
Query: 133 PFISPCGRERNFIR--CDDTPVVYTHVITTPEGEFFCHNHAGDELRHPFDPS 182
FISPCG R +R D V +T P+G F + L F P
Sbjct: 94 EFISPCGACRQVMREFGTDWAV----YMTKPDGTFVVRT-VQELLPASFGPE 140
>1qy5_A Endoplasmin; GRP94, NECA, HSP90, chaperone; HET: NEC; 1.75A {Canis
lupus familiaris} SCOP: d.122.1.1 PDB: 1qy8_A* 1qye_A*
1u0y_A* 1yt2_A*
Length = 269
Score = 34.5 bits (80), Expect = 0.023
Identities = 13/49 (26%), Positives = 22/49 (44%)
Query: 233 VWGEREVELDLEWIRREEDEEKTETRKKDEDVLGKEKENKKKKKKKKKK 281
VW + ++ E +E+ E + V +E+E K K KK +K
Sbjct: 213 VWSSKTETVEEPMEEEEAAKEEKEDSDDEAAVEEEEEEKKPKTKKVEKT 261
>1r5t_A Cytidine deaminase; zinc dependent deaminase, RNA editing, apobec-1
related protein, hydrolase; 2.00A {Saccharomyces
cerevisiae} SCOP: c.97.1.1
Length = 142
Score = 33.2 bits (76), Expect = 0.032
Identities = 17/56 (30%), Positives = 21/56 (37%), Gaps = 7/56 (12%)
Query: 130 DEFPFISPCGRERNFIR---CDDTPVVYTHVITTPEGEFFCHNHAGDELRHPFDPS 182
E +SPCG R FI D P+ V+ G G+ L F PS
Sbjct: 88 SEDQCVSPCGVCRQFINEFVVKDFPI----VMLNSTGSRSKVMTMGELLPMAFGPS 139
>2z3g_A Blasticidin-S deaminase; hydrolase, cytidine deaminase family,
zinc, tetramer; HET: TRE; 1.50A {Aspergillus terreus}
SCOP: c.97.1.1 PDB: 1wn6_A* 1wn5_A* 2z3h_A* 2z3j_A
2z3i_A*
Length = 130
Score = 32.9 bits (75), Expect = 0.034
Identities = 8/54 (14%), Positives = 17/54 (31%), Gaps = 7/54 (12%)
Query: 130 DEFPFISPCGRERNFIR--CDDTPVVYTHVITTPEGEFFCHNHAGDELRHPFDP 181
+ +SPCGR R + ++ +G+ + L +
Sbjct: 80 ENRGILSPCGRCRQVLLDLHPGIKA----IVKDSDGQPTAVG-IRELLPSGYVW 128
>3ok8_A Brain-specific angiogenesis inhibitor 1-associate 2-like protein 2;
I-BAR, protein binding; 2.25A {Mus musculus}
Length = 222
Score = 31.3 bits (70), Expect = 0.25
Identities = 9/50 (18%), Positives = 25/50 (50%)
Query: 236 EREVELDLEWIRREEDEEKTETRKKDEDVLGKEKENKKKKKKKKKKEKKN 285
E+ +LD+++I+ + E R + ++ E + ++K+ K ++
Sbjct: 107 EKNTKLDMQFIKDSCQHYEIEYRHRAANLEKCMSELWRMERKRDKNAREM 156
>2ykt_A Brain-specific angiogenesis inhibitor 1-associate protein 2;
signaling protein, NPY motif, binding pocket; 2.11A
{Homo sapiens} PDB: 1y2o_A 1wdz_A
Length = 253
Score = 30.6 bits (68), Expect = 0.53
Identities = 14/55 (25%), Positives = 28/55 (50%)
Query: 232 IVWGEREVELDLEWIRREEDEEKTETRKKDEDVLGKEKENKKKKKKKKKKEKKNR 286
+ E++VELD ++ + +TE R K + + + E KK +KK + + +
Sbjct: 105 LTQLEQKVELDSRYLSAALKKYQTEQRSKGDALDKCQAELKKLRKKSQGSKNPQK 159
>3b8f_A Putative blasticidin S deaminase; cytidine deaminase, structural
genomics, MCSG, protein structure initiative; 1.90A
{Bacillus anthracis}
Length = 142
Score = 29.9 bits (67), Expect = 0.54
Identities = 7/56 (12%), Positives = 17/56 (30%), Gaps = 7/56 (12%)
Query: 129 EDEFPFISPCGRERNFIR--CDDTPVVYTHVITTPEGEFFCHNHAGDELRHPFDPS 182
E +SPCG + + + IT + + + + + +
Sbjct: 80 HSELKVLSPCGVCQERLFYWGPEVQC----AITNAKQDIIFKP-LKELQPYHWTEA 130
>1uwz_A Cytidine deaminase; CDD, tetramer, zinc binding, pyrimidine
metabolism, salvage, hydrolase; HET: THU; 1.99A
{Bacillus subtilis} SCOP: c.97.1.1 PDB: 1ux0_A* 1jtk_A*
1ux1_A*
Length = 136
Score = 29.7 bits (67), Expect = 0.57
Identities = 13/55 (23%), Positives = 19/55 (34%), Gaps = 6/55 (10%)
Query: 130 DEFPFISPCGRERNFIR--CDDTPVVYTHVITTPEGEFFCHNHAGDELRHPFDPS 182
D +SPCG R I C +V +T +G+ + L F
Sbjct: 78 DTPGPVSPCGACRQVISELCTKDVIVV---LTNLQGQIKEMT-VEELLPGAFSSE 128
>2d30_A Cytidine deaminase; purines, pyrimidines, nucleosides, nucleotides,
salvage of nucleosides and nucleotides, structural
genomics; 2.40A {Bacillus anthracis} SCOP: c.97.1.1
Length = 141
Score = 29.7 bits (67), Expect = 0.61
Identities = 12/56 (21%), Positives = 18/56 (32%), Gaps = 8/56 (14%)
Query: 130 DEFPFISPCGRERNFIR---CDDTPVVYTHVITTPEGEFFCHNHAGDELRHPFDPS 182
D + PCG R + DT V ++ G+ G+ L F
Sbjct: 87 DTKRPVPPCGACRQVMVELCKQDTKV----YLSNLHGDVQETT-VGELLPGAFLAE 137
>3oj6_A Blasticidin-S deaminase; ssgcid, seattle structural genomics for
infectious disease, hydrolase; 1.70A {Coccidioides
immitis}
Length = 158
Score = 29.5 bits (66), Expect = 0.84
Identities = 6/26 (23%), Positives = 9/26 (34%), Gaps = 2/26 (7%)
Query: 133 PFISPCGRERNFIR--CDDTPVVYTH 156
+SPCGR R + +
Sbjct: 107 GILSPCGRCRQVLADLHPGIKAIVIG 132
>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 56
Score = 26.9 bits (60), Expect = 1.2
Identities = 10/39 (25%), Positives = 15/39 (38%), Gaps = 8/39 (20%)
Query: 138 CGRERNFIRCDDTPVVYTHVI-------TTPEGEFFCHN 169
C + + CD VY H+ T P+G + C
Sbjct: 15 CRKSGQLLMCDTCSRVY-HLDCLDPPLKTIPKGMWICPR 52
>3peh_A Endoplasmin homolog; structural genomics, structural genomics
consortium, SGC, HE protein, chaperone, ATP binding;
HET: IBD; 2.75A {Plasmodium falciparum 3D7} PDB: 3pej_A*
Length = 281
Score = 29.5 bits (67), Expect = 1.3
Identities = 6/52 (11%), Positives = 18/52 (34%), Gaps = 5/52 (9%)
Query: 233 VWGEREVELDLEWIRREEDEEKTETRKKDEDVLGKEKENKKKKKKKKKKEKK 284
+ E ++ ++ + D + E+ + KK + ++K
Sbjct: 228 LLHENVYTEEVLADIAKDMVN-----DPNYDSVKVEETDDPNKKTRTVEKKV 274
>3mpz_A Cytidine deaminase; ssgcid, structu genomics, seattle structural
genomics center for infectious hydrolase; 1.70A
{Mycobacterium smegmatis} PDB: 3ijf_X
Length = 150
Score = 28.6 bits (64), Expect = 1.3
Identities = 6/34 (17%), Positives = 12/34 (35%), Gaps = 3/34 (8%)
Query: 130 DEFPFISPCGRERNFIR---CDDTPVVYTHVITT 160
+ + PCGR R + + + + H
Sbjct: 100 PDGGVLMPCGRCRQVLLEHGGPELLIDHAHGPRP 133
>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB,
proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR
binding; 3.65A {Bacillus subtilis}
Length = 468
Score = 29.5 bits (67), Expect = 1.4
Identities = 15/66 (22%), Positives = 34/66 (51%), Gaps = 11/66 (16%)
Query: 226 TSAPTHIVWGEREVELDLEWIRRE-------EDEEKTETRKKDEDVLGKEKENKKKKKKK 278
+ P ++ +E+E L+ +R+E ++ EK + + E L ++ E+ KK K+
Sbjct: 390 FTTPPNL----KELEQKLDEVRKEKDAAVQSQEFEKAASLRDTEQRLREQVEDTKKSWKE 445
Query: 279 KKKEKK 284
K+ ++
Sbjct: 446 KQGQEN 451
>3r2n_A Cytidine deaminase; structural genomics, seattle structural
genomics center for infectious disease, ssgcid,
tuberculosis; 2.30A {Mycobacterium leprae}
Length = 138
Score = 28.5 bits (64), Expect = 1.5
Identities = 9/55 (16%), Positives = 16/55 (29%), Gaps = 13/55 (23%)
Query: 130 DEFPFISPCGRERNFIR---CDDTPVVYTHVITTPEGEFFCHNHAGDELRHPFDP 181
+ PCGR R + + ++ + T L F+P
Sbjct: 85 GNGDSLMPCGRCRQLLYEHGGPELKIMTPKGVQT----------MAQLLPQAFNP 129
>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC
repeat; 2.70A {Saccharomyces cerevisiae}
Length = 963
Score = 29.4 bits (65), Expect = 1.5
Identities = 10/59 (16%), Positives = 23/59 (38%)
Query: 226 TSAPTHIVWGEREVELDLEWIRREEDEEKTETRKKDEDVLGKEKENKKKKKKKKKKEKK 284
T+A + + E ++++ E+ E ++ KE + ++ K K K
Sbjct: 817 TTARAKARAKKTKKEKGPNEEEKKKEHEEKEKERETNKKGIKETKENDEEFYKNKYSSK 875
>1mm2_A MI2-beta; PHD, zinc finger, protein scaffold, DNA binding protein;
NMR {Homo sapiens} SCOP: g.50.1.2 PDB: 2l75_A* 1mm3_A
Length = 61
Score = 27.0 bits (60), Expect = 1.7
Identities = 10/39 (25%), Positives = 13/39 (33%), Gaps = 8/39 (20%)
Query: 138 CGRERNFIRCDDTPVVYTHVI-------TTPEGEFFCHN 169
C + CD P Y H+ P GE+ C
Sbjct: 15 CKDGGELLCCDTCPSSY-HIHCLNPPLPEIPNGEWLCPR 52
>3dmo_A Cytidine deaminase; structural genomics, seattle structural
genomics center for infectious disease, ssgcid,
hydrolase; 1.60A {Burkholderia pseudomallei}
Length = 138
Score = 28.3 bits (63), Expect = 1.7
Identities = 14/54 (25%), Positives = 21/54 (38%), Gaps = 8/54 (14%)
Query: 130 DEFPFISPCGRERNFIR---CDDTPVVYTHVITTPEGEFFCHNHAGDELRHPFD 180
+ I+PCG R + V V+T +G+ + AGD L F
Sbjct: 88 ETHGPIAPCGACRQVMIELGKPTLEV----VLTNMQGDVRVTS-AGDLLPDAFY 136
>3obv_E Protein diaphanous homolog 1; autoinhibition, actin, nucleation,
cytoskeleton, structural; HET: SUC; 2.75A {Mus musculus}
PDB: 3o4x_E 2bap_D
Length = 457
Score = 29.1 bits (65), Expect = 1.7
Identities = 11/42 (26%), Positives = 20/42 (47%)
Query: 244 EWIRREEDEEKTETRKKDEDVLGKEKENKKKKKKKKKKEKKN 285
E +R E EEK K ++ KE+ K++K+++
Sbjct: 382 ENQKRRETEEKMRRAKLAKEKAEKERLEKQQKREQLIDMNAE 423
>1ctt_A Cytidine deaminase; hydrolase; HET: DHZ; 2.20A {Escherichia coli}
SCOP: c.97.1.1 c.97.1.1 PDB: 1aln_A* 1af2_A* 1ctu_A*
Length = 294
Score = 28.8 bits (64), Expect = 1.9
Identities = 4/31 (12%), Positives = 7/31 (22%), Gaps = 3/31 (9%)
Query: 127 LYEDEFPFISPCGRERNFIR---CDDTPVVY 154
L E + ++ C V
Sbjct: 262 LAEKADAPLIQWDATSATLKALGCHSIDRVL 292
>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 = 29.1 bits (64), Expect = 2.1
Identities = 39/333 (11%), Positives = 79/333 (23%), Gaps = 132/333 (39%)
Query: 21 VQGQSPEPNRREYFYYIDHNGMLFLDDARMKNFTSCFK------EKKFLNVKGISYVQGQ 74
+ + P R Y D R+ N F + +L ++ +
Sbjct: 100 TEQRQPSMMTRMYIEQRD----------RLYNDNQVFAKYNVSRLQPYLKLR--QALLEL 147
Query: 75 SPEPNRREYFYYIDHNGML----------FLDDARMK----------NFTSCFKEK---K 111
P + +G+L +++ N +C + +
Sbjct: 148 RPAK-------NVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLE 200
Query: 112 FLVFFFQRLRRNETGLYEDEFPFISPCG----------RERNFIRC----DD-------- 149
L ++ N T + + + + C +
Sbjct: 201 MLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWN 260
Query: 150 ---------------------TPVVYTHV--------ITTPEG-EFF--CHNHAGDELR- 176
+ TH+ +T E + +L
Sbjct: 261 AFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPR 320
Query: 177 -----HPFDPSKIYMSLDTGRIYHPTTSQYGSVALIQSKTAIELS--------------K 217
+P S I S+ R T + V + T IE S +
Sbjct: 321 EVLTTNPRRLSIIAESI---RDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDR 377
Query: 218 LLQFRNGETSAPTH---IVWGE---REVELDLE 244
L F PT ++W + +V + +
Sbjct: 378 LSVFPPS-AHIPTILLSLIWFDVIKSDVMVVVN 409
>3iz6_V 40S ribosomal protein S25 (S25E); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum}
Length = 108
Score = 27.7 bits (61), Expect = 2.1
Identities = 12/35 (34%), Positives = 16/35 (45%)
Query: 252 EEKTETRKKDEDVLGKEKENKKKKKKKKKKEKKNR 286
++K G K+ KKK K K+KEK N
Sbjct: 5 KDKAPPPSSKPAKSGGGKQKKKKWSKGKQKEKVNN 39
>2zkr_r 60S ribosomal protein L17; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 184
Score = 28.4 bits (63), Expect = 2.3
Identities = 10/33 (30%), Positives = 19/33 (57%)
Query: 252 EEKTETRKKDEDVLGKEKENKKKKKKKKKKEKK 284
EK + K E+ + ++K+ +KK KK+K +
Sbjct: 151 TEKEQIVPKPEEEVAQKKKISQKKLKKQKLMAR 183
Score = 26.8 bits (59), Expect = 6.8
Identities = 11/33 (33%), Positives = 21/33 (63%)
Query: 252 EEKTETRKKDEDVLGKEKENKKKKKKKKKKEKK 284
E++ K +E+V K+K ++KK KK+K ++
Sbjct: 152 EKEQIVPKPEEEVAQKKKISQKKLKKQKLMARE 184
>3u5c_Z RP45, S31, YS23, 40S ribosomal protein S25-A; translation,
ribosome, ribosomal, ribosomal R ribosomal protein,
eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces
cerevisiae} PDB: 3izb_V 3o30_Q 3o2z_Q 3u5g_Z
Length = 108
Score = 27.3 bits (60), Expect = 2.4
Identities = 9/34 (26%), Positives = 15/34 (44%)
Query: 253 EKTETRKKDEDVLGKEKENKKKKKKKKKKEKKNR 286
++ K L K++KKK KK K++
Sbjct: 5 QQLSKAAKAAAALAGGKKSKKKWSKKSMKDRAQH 38
>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC
complex, transcription; 1.43A {Homo sapiens}
Length = 60
Score = 26.2 bits (58), Expect = 2.7
Identities = 10/39 (25%), Positives = 15/39 (38%), Gaps = 8/39 (20%)
Query: 138 CGRERNFIRCDDTPVVYTHVI-------TTPEGEFFCHN 169
C + + CD VY H+ T P+G + C
Sbjct: 11 CRKSGQLLMCDTCSRVY-HLDCLDPPLKTIPKGMWICPR 48
>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta,
PHD, protein binding, peptide binding metal binding
protein; NMR {Homo sapiens}
Length = 61
Score = 25.8 bits (57), Expect = 3.7
Identities = 11/39 (28%), Positives = 16/39 (41%), Gaps = 8/39 (20%)
Query: 138 CGRERNFIRCDDTPVVYTH-------VITTPEGEFFCHN 169
C + I CD P Y H + PEG++ C +
Sbjct: 17 CQQGGEIILCDTCPRAY-HMVCLDPDMEKAPEGKWSCPH 54
>2xzm_8 RPS25E,; ribosome, translation; 3.93A {Tetrahymena thermophila}
PDB: 2xzn_8
Length = 143
Score = 27.1 bits (59), Expect = 4.0
Identities = 10/33 (30%), Positives = 16/33 (48%)
Query: 254 KTETRKKDEDVLGKEKENKKKKKKKKKKEKKNR 286
+ +T++ +K KKK K K K+K N
Sbjct: 9 QKKTKEAIAKAAQAKKGGKKKWTKGKAKDKVNH 41
>3kio_B Ribonuclease H2 subunit B; aicardi-goutieres syndrome, RNAse H2,
protein complex, autoimmune disease, endonuclease,
hydrolase, metal-binding; 2.90A {Mus musculus} PDB:
3p5j_B 3puf_B 3p56_B
Length = 332
Score = 27.9 bits (61), Expect = 4.4
Identities = 8/37 (21%), Positives = 11/37 (29%)
Query: 248 REEDEEKTETRKKDEDVLGKEKENKKKKKKKKKKEKK 284
+E E E K K + K +K K
Sbjct: 273 SDEPVEAKEDYTKFNTKDLKTGKKNSKMTAAQKALAK 309
>3vh5_A CENP-S; histone fold, chromosome segregation, DNA binding, nucleus,
binding protein; 2.40A {Gallus gallus} PDB: 3vh6_A
Length = 140
Score = 27.0 bits (59), Expect = 4.4
Identities = 12/41 (29%), Positives = 18/41 (43%)
Query: 247 RREEDEEKTETRKKDEDVLGKEKENKKKKKKKKKKEKKNRR 287
RR K T+K DE ++ +KKKKK + +
Sbjct: 85 RRSNSLLKYITQKSDELASSNMEQKEKKKKKSSAAKGRKTE 125
>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain,
-structure, transcription; NMR {Homo sapiens} SCOP:
g.50.1.2
Length = 88
Score = 26.1 bits (57), Expect = 4.5
Identities = 6/39 (15%), Positives = 13/39 (33%), Gaps = 8/39 (20%)
Query: 138 CGRERNFIRCDDTPVVYTH-------VITTPEGEFFCHN 169
C + + + C+ + H + P E+ C
Sbjct: 31 CQKPGDLVMCNQCEFCF-HLDCHLPALQDVPGEEWSCSL 68
>1ux5_A BNI1 protein; structural protein, FH2 actin cytoskeleton; 2.5A
{Saccharomyces cerevisiae} SCOP: a.207.1.1 PDB: 1y64_B*
1ux4_A
Length = 411
Score = 27.9 bits (62), Expect = 4.6
Identities = 7/57 (12%), Positives = 20/57 (35%), Gaps = 5/57 (8%)
Query: 228 APTHIVWGEREVELDLEWIRREEDEEKTETRKKDEDVLGKEKENKKKKKKKKKKEKK 284
+ +WG + E + + + E +E ++ K+K+ ++
Sbjct: 19 CTDNSIWGTGKAEKFADDLYEKGVLADLEKAFA-----AREIKSLASKRKEDLQKIT 70
>3lvh_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 9.00A {Bos
taurus}
Length = 205
Score = 27.6 bits (60), Expect = 4.6
Identities = 12/53 (22%), Positives = 26/53 (49%), Gaps = 3/53 (5%)
Query: 234 WGEREVELDLEWIRREEDEEKTETRKKDEDVLGKEKENKKKKKKKKKKEKKNR 286
W E + L+ + + E R+K + L E+ N+++ ++ +K + NR
Sbjct: 105 WREEQ-RKRLQELDAASKVMEQEWREKAKKDL--EEWNQRQSEQVEKNKINNR 154
>2xts_A Sulfite dehydrogenase; oxidoreductase-electron transport complex,
SOX system, sulfa oxidation, molybdenum cofactor, heme,
electron transfer; HET: MTE HEC; 1.33A {Paracoccus
pantotrophus}
Length = 390
Score = 27.8 bits (62), Expect = 5.2
Identities = 8/24 (33%), Positives = 12/24 (50%)
Query: 149 DTPVVYTHVITTPEGEFFCHNHAG 172
TP+ TP+G F +H+G
Sbjct: 55 FTPIHALEGTITPQGCAFERHHSG 78
>4dex_B Voltage-dependent N-type calcium channel subunit; maguk, voltage
dependent calcium channel, transport protein; 2.00A
{Rattus norvegicus}
Length = 113
Score = 26.3 bits (57), Expect = 6.1
Identities = 14/52 (26%), Positives = 23/52 (44%)
Query: 236 EREVELDLEWIRREEDEEKTETRKKDEDVLGKEKENKKKKKKKKKKEKKNRR 287
ERE+ LEWI + E+ E K E+ + K+ KK + + +
Sbjct: 27 ERELNGYLEWIFKAEEVMLAEEDKNAEEKSPLDAVLKRAATKKSRNDLIHAE 78
>2zkr_u 60S ribosomal protein L24; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 157
Score = 26.6 bits (58), Expect = 6.7
Identities = 11/48 (22%), Positives = 17/48 (35%), Gaps = 1/48 (2%)
Query: 239 VELDLEWIRREEDEEKTETRKKDEDVLGKEKENKKKKKKKKKKEKKNR 286
L I + +K E RK + + + KK K+ KK
Sbjct: 83 TGASLADIMAKR-NQKPEVRKAQREQAIRAAKEAKKAKQASKKTAMAA 129
>4a17_I RPL13A, 60S ribosomal protein L13A; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_I 4a1c_I 4a1e_I
Length = 198
Score = 26.8 bits (59), Expect = 7.5
Identities = 13/50 (26%), Positives = 20/50 (40%)
Query: 234 WGEREVELDLEWIRREEDEEKTETRKKDEDVLGKEKENKKKKKKKKKKEK 283
WG++ + LE RR + + + K D KE K K K +
Sbjct: 146 WGKQTLIEKLEEKRRARAKTYHDKKVKQADARKKELAAPALKAIKDKLAQ 195
>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin
subfragment 2, heavy meromyosin, essential light chain,
motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP:
i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A
Length = 1184
Score = 27.5 bits (61), Expect = 7.5
Identities = 12/49 (24%), Positives = 25/49 (51%), Gaps = 5/49 (10%)
Query: 236 EREVELDLEWIRREEDEEKTETRKKDEDVLGKEKENKKKKKKKKKKEKK 284
E V L + EE + E R ++E E+ +++ + +KKK +++
Sbjct: 913 EMRVRLAAKKQELEEILHEMEARIEEE-----EERSQQLQAEKKKMQQQ 956
>2zkr_c 60S ribosomal protein L4; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 421
Score = 27.1 bits (59), Expect = 8.2
Identities = 11/38 (28%), Positives = 20/38 (52%)
Query: 247 RREEDEEKTETRKKDEDVLGKEKENKKKKKKKKKKEKK 284
RR++ ++ +K + V+GK+ KK KK +K
Sbjct: 373 RRKKGKKTVGVKKPKKPVVGKKAAATKKPAADKKPAEK 410
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
0.320 0.138 0.419
Gapped
Lambda K H
0.267 0.0439 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,538,113
Number of extensions: 274337
Number of successful extensions: 1478
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1351
Number of HSP's successfully gapped: 125
Length of query: 287
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 194
Effective length of database: 4,105,140
Effective search space: 796397160
Effective search space used: 796397160
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: 57 (26.5 bits)