RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7022
(124 letters)
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 37.1 bits (85), Expect = 5e-04
Identities = 8/52 (15%), Positives = 27/52 (51%), Gaps = 2/52 (3%)
Query: 54 KKKYEQKKKDYDIEQRMRELKEEEEKLKE--YRRERRKEKKRKLDDGEEEEE 103
+++ ++ D + +E +E+ +K E +R+ + +K K+++ ++
Sbjct: 93 EQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKA 144
Score = 34.7 bits (79), Expect = 0.003
Identities = 10/43 (23%), Positives = 21/43 (48%), Gaps = 1/43 (2%)
Query: 69 RMRELKEEEEKLKEYRRERRKEKKRKLDDGEEEEEGDQSDLAA 111
+ L +E E ++++R E+RK + D + E + + A
Sbjct: 76 QADRLTQEPESIRKWREEQRKRLQEL-DAASKVMEQEWREKAK 117
Score = 30.5 bits (68), Expect = 0.096
Identities = 13/61 (21%), Positives = 24/61 (39%)
Query: 37 RVERSSLDQVKKRFDMNKKKYEQKKKDYDIEQRMRELKEEEEKLKEYRRERRKEKKRKLD 96
R E+ Q ++ ++K D+E+ + E+ EK K R K ++ D
Sbjct: 91 REEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKAFYQQPD 150
Query: 97 D 97
Sbjct: 151 A 151
Score = 30.1 bits (67), Expect = 0.14
Identities = 8/37 (21%), Positives = 21/37 (56%)
Query: 67 EQRMRELKEEEEKLKEYRRERRKEKKRKLDDGEEEEE 103
E++ + L+E + K +E R++ K+ L++ + +
Sbjct: 92 EEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQS 128
Score = 29.0 bits (64), Expect = 0.32
Identities = 5/40 (12%), Positives = 19/40 (47%)
Query: 67 EQRMRELKEEEEKLKEYRRERRKEKKRKLDDGEEEEEGDQ 106
+ +R+ +EE+ K + K +++ + +++ +
Sbjct: 84 PESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEW 123
>1wle_A Seryl-tRNA synthetase; ligase; HET: SRP; 1.65A {Bos taurus}
Length = 501
Score = 36.5 bits (85), Expect = 0.001
Identities = 10/93 (10%), Positives = 34/93 (36%), Gaps = 9/93 (9%)
Query: 28 HQRNLGMSM---RVERSSLDQVKKRFDMNKKKYEQKKKDYD----IEQRMRELKEEEEKL 80
+ + + + + + ++ +K E + KD Q +R+L+E+ L
Sbjct: 32 REGYSALPLLDMESLCAYPEDAARA--LDLRKGELRSKDLPGIISTWQELRQLREQIRSL 89
Query: 81 KEYRRERRKEKKRKLDDGEEEEEGDQSDLAAIM 113
+E + + + + + + + ++
Sbjct: 90 EEEKEAVTEAVRALVVNQDNSQVQQDPQYQSLR 122
>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 = 34.1 bits (77), Expect = 0.007
Identities = 15/106 (14%), Positives = 31/106 (29%), Gaps = 20/106 (18%)
Query: 12 VVKDSINFLDHINGKKHQRNLG-------------------MSMRVERSSLDQVKKRFDM 52
+++ S+N L+ +K L + ++++ K +
Sbjct: 358 IIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLV 417
Query: 53 NKKKYEQKKKDYDIEQRMRELKEEEEKL-KEYRRERRKEKKRKLDD 97
K+ E I ++ E E L + K DD
Sbjct: 418 EKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDD 463
Score = 26.7 bits (58), Expect = 2.3
Identities = 15/114 (13%), Positives = 37/114 (32%), Gaps = 24/114 (21%)
Query: 14 KDSINFLDHINGKKHQRNLGMSMRVERSSLDQVKKRFDMNKKKYEQK---KKDYDI-EQR 69
+ + H+N K + S+ V L+ +K +++ I
Sbjct: 341 LATWDNWKHVNCDKLTTIIESSLNV----LE-----PAEYRKMFDRLSVFPPSAHIPTIL 391
Query: 70 M----RELKEEE-----EKLKEYR--RERRKEKKRKLDDGEEEEEGDQSDLAAI 112
+ ++ + + KL +Y ++ KE + E + + A+
Sbjct: 392 LSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYAL 445
Score = 26.0 bits (56), Expect = 4.8
Identities = 10/62 (16%), Positives = 26/62 (41%), Gaps = 7/62 (11%)
Query: 4 YYCNVCDCVVKDSI-----NFLDHINGKKHQRNLGM-SMRVERSSLDQVKKRFDMNKKKY 57
++ N+ +C +++ L I+ R+ ++++ S+ +R + K Y
Sbjct: 185 FWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRL-LKSKPY 243
Query: 58 EQ 59
E
Sbjct: 244 EN 245
Score = 25.6 bits (55), Expect = 5.3
Identities = 16/74 (21%), Positives = 25/74 (33%), Gaps = 15/74 (20%)
Query: 19 FLDH--INGKKHQRNLGMSMRVERSSLDQV------KKRFDMNKKKYEQKKKDYDIEQRM 70
FLD + K R+ + S L+ + K N KYE+ +
Sbjct: 497 FLDFRFLEQK--IRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAI-----L 549
Query: 71 RELKEEEEKLKEYR 84
L + EE L +
Sbjct: 550 DFLPKIEENLICSK 563
>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 = 33.9 bits (77), Expect = 0.008
Identities = 21/117 (17%), Positives = 37/117 (31%), Gaps = 33/117 (28%)
Query: 19 FLDHINGKKHQRNLGMSMRVERSSLDQVKKRFDMNKKKYEQKKKDYDIEQRMRELKEEEE 78
FL +++ +G +V L + + + + DI +L +E +
Sbjct: 64 FLGYVSSLVEPSKVGQFDQVLNLCLTEFENCY-LEGN---------DIHALAAKLLQEND 113
Query: 79 K--------LKEY-------RRERRKEKKRKLDDGEEEEEGDQSDLAAIMGFSGFGG 120
+K Y +R K+ L E + L AI FGG
Sbjct: 114 TTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEG---NAQLVAI-----FGG 162
>1zu1_A DSRBP-ZFA, RNA binding protein ZFA; zinc finger protein,
helix-loop-helix, helix-turn-helix; NMR {Xenopus
laevis} SCOP: g.37.1.4 g.37.1.4
Length = 127
Score = 32.6 bits (73), Expect = 0.014
Identities = 11/52 (21%), Positives = 18/52 (34%)
Query: 5 YCNVCDCVVKDSINFLDHINGKKHQRNLGMSMRVERSSLDQVKKRFDMNKKK 56
C VC V+ L H +KH + M + + K+F +
Sbjct: 34 QCKVCSAVLISESQKLAHYQSRKHANKVRRYMAINQGEDSVPAKKFKAAPAE 85
Score = 31.1 bits (69), Expect = 0.051
Identities = 9/29 (31%), Positives = 12/29 (41%)
Query: 4 YYCNVCDCVVKDSINFLDHINGKKHQRNL 32
C VC+ + H GK H +NL
Sbjct: 94 KCCPVCNMTFSSPVVAESHYIGKTHIKNL 122
>2qr4_A Peptidase M3B, oligoendopeptidase F; structural genomics, PSI-2,
protein ST initiative; 2.50A {Enterococcus faecium}
Length = 587
Score = 32.3 bits (74), Expect = 0.029
Identities = 8/38 (21%), Positives = 18/38 (47%), Gaps = 3/38 (7%)
Query: 67 EQRMRELKEEEEKLKEYR---RERRKEKKRKLDDGEEE 101
+ ++ + +EE KL+ YR ++ + L +E
Sbjct: 100 DDQIWQYFKEEPKLEVYRHYIQQIVDNRAHVLSAEQES 137
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 31.6 bits (72), Expect = 0.053
Identities = 13/79 (16%), Positives = 34/79 (43%), Gaps = 5/79 (6%)
Query: 26 KKHQRNLGMSMRVERSSLDQVKKR-FDMNKKKYEQKKKDYDIEQRMRELKEEEEKLKEYR 84
K+ + L ++E S+++ KK + K + ++K + + + L E+ L+
Sbjct: 903 KRELKKL----KIEARSVERYKKLHIGLENKIMQLQRKIDEQNKEYKSLLEKMNNLEITY 958
Query: 85 RERRKEKKRKLDDGEEEEE 103
++ + ++ EE
Sbjct: 959 STETEKLRSDVERLRMSEE 977
Score = 28.2 bits (63), Expect = 0.76
Identities = 21/81 (25%), Positives = 32/81 (39%), Gaps = 5/81 (6%)
Query: 25 GKKHQRNLGMSMRVERSSLDQVKKRFDMNKKKYEQKKKDYDIEQ---RMRELKEEEEKLK 81
G + M +R +S + Q R + + Y + K Q R K E +KLK
Sbjct: 851 GYLVRNKYQMMLREHKSIIIQKHVRGWLARVHYHRTLKAIVYLQCCYRRMMAKRELKKLK 910
Query: 82 EYRRERRKEKKRKLDDGEEEE 102
R E+ +KL G E +
Sbjct: 911 I--EARSVERYKKLHIGLENK 929
Score = 26.2 bits (58), Expect = 3.2
Identities = 17/81 (20%), Positives = 38/81 (46%), Gaps = 6/81 (7%)
Query: 35 SMRVERSSLDQVKKRFDMNKKKYEQKKKDY--DIEQRMRELKEEEEKLK----EYRRERR 88
+R E KK + KY+ + + +++++ LK E+E+L + +E
Sbjct: 995 KLRKELHQTQTEKKTIEEWADKYKHETEQLVSELKEQNTLLKTEKEELNRRIHDQAKEIT 1054
Query: 89 KEKKRKLDDGEEEEEGDQSDL 109
+ ++KL + ++ E D +D
Sbjct: 1055 ETMEKKLVEETKQLELDLNDE 1075
>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 = 29.8 bits (67), Expect = 0.23
Identities = 16/75 (21%), Positives = 36/75 (48%)
Query: 38 VERSSLDQVKKRFDMNKKKYEQKKKDYDIEQRMRELKEEEEKLKEYRRERRKEKKRKLDD 97
+E + K R ++ K K + + + D+ +++ EL+ + +LK ++ +E + L
Sbjct: 1044 LEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAELKAQLAKKEEELQAALAR 1103
Query: 98 GEEEEEGDQSDLAAI 112
E+E + L I
Sbjct: 1104 LEDETSQKNNALKKI 1118
Score = 29.4 bits (66), Expect = 0.27
Identities = 12/67 (17%), Positives = 36/67 (53%), Gaps = 3/67 (4%)
Query: 37 RVERSSLDQVKKRFDMNKKKYEQKKKDYDIEQRMRELKEEEEKLKEYRRERRKEKKRKLD 96
+ ++++ + +++ +KKK ++Q+M +L+E+ E+ + R++ + EK
Sbjct: 927 EILHEMEARIEEEEERSQQLQAEKKK---MQQQMLDLEEQLEEEEAARQKLQLEKVTADG 983
Query: 97 DGEEEEE 103
++ E+
Sbjct: 984 KIKKMED 990
Score = 28.6 bits (64), Expect = 0.51
Identities = 11/65 (16%), Positives = 33/65 (50%), Gaps = 3/65 (4%)
Query: 40 RSSLDQVKKRFDMNKKKYEQKKKDYDIEQRMRELKEEEEKLKEYRR---ERRKEKKRKLD 96
+ + R + KK E ++ +++E R+ E +E ++L+ ++ ++ + + +L+
Sbjct: 906 ELYAEAEEMRVRLAAKKQELEEILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQLE 965
Query: 97 DGEEE 101
+ E
Sbjct: 966 EEEAA 970
Score = 28.6 bits (64), Expect = 0.56
Identities = 11/72 (15%), Positives = 31/72 (43%), Gaps = 3/72 (4%)
Query: 45 QVKKRFDMNKKKYEQKKKDYDIEQRMRE-LKEEEEKLKEYRRERRK--EKKRKLDDGEEE 101
+++ ++ + E + + +Q + E L E E +++E ++ +K+K+ +
Sbjct: 900 KLQAETELYAEAEEMRVRLAAKKQELEEILHEMEARIEEEEERSQQLQAEKKKMQQQMLD 959
Query: 102 EEGDQSDLAAIM 113
E + A
Sbjct: 960 LEEQLEEEEAAR 971
Score = 28.3 bits (63), Expect = 0.76
Identities = 15/82 (18%), Positives = 31/82 (37%), Gaps = 4/82 (4%)
Query: 26 KKHQRNLGMSMRVERSSLDQVKKRFDMNKKKYEQKKKDY-DIEQRMRELKEEEEKLKEYR 84
+ L + + L R + + K ++E + +L+E+ E K R
Sbjct: 1080 QAQIAELKAQLAKKEEELQAALARLEDETSQKNNALKKIRELESHISDLQEDLESEKAAR 1139
Query: 85 RERRKEK---KRKLDDGEEEEE 103
+ K+K +L+ + E E
Sbjct: 1140 NKAEKQKRDLSEELEALKTELE 1161
Score = 27.9 bits (62), Expect = 0.94
Identities = 11/60 (18%), Positives = 25/60 (41%)
Query: 44 DQVKKRFDMNKKKYEQKKKDYDIEQRMRELKEEEEKLKEYRRERRKEKKRKLDDGEEEEE 103
++ R + +K K +E + ++++ KL + R+ + + EEEE
Sbjct: 966 EEEAARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEE 1025
Score = 26.0 bits (57), Expect = 4.1
Identities = 11/78 (14%), Positives = 30/78 (38%), Gaps = 1/78 (1%)
Query: 27 KHQRNLGMSMRVERSSLDQVKKRFDMNKKKYEQK-KKDYDIEQRMRELKEEEEKLKEYRR 85
+ + E L+Q + K ++K + + ++ E++ K+
Sbjct: 867 QRTKERQQKAEAELKELEQKHTQLCEEKNLLQEKLQAETELYAEAEEMRVRLAAKKQELE 926
Query: 86 ERRKEKKRKLDDGEEEEE 103
E E + ++++ EE +
Sbjct: 927 EILHEMEARIEEEEERSQ 944
Score = 26.0 bits (57), Expect = 4.4
Identities = 16/86 (18%), Positives = 35/86 (40%), Gaps = 4/86 (4%)
Query: 26 KKHQRNLGMSMRVERSSLDQVKKRFDMNKKKYEQKKKDYDIEQRMRELKEEEEKLKEYRR 85
+ + ++ + ++ + NK E+K + + L EEEEK K +
Sbjct: 975 QLEKVTADGKIKKMEDDILIMEDQ--NNKLTKERKLLEERVSDLTTNLAEEEEKAKNLTK 1032
Query: 86 ERRK--EKKRKLDDGEEEEEGDQSDL 109
+ K +L+ ++EE + +L
Sbjct: 1033 LKNKHESMISELEVRLKKEEKSRQEL 1058
>3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription,
multi-protein complex, DNA- binding, magnesium; 3.65A
{Schizosaccharomyces pombe}
Length = 1752
Score = 29.7 bits (66), Expect = 0.27
Identities = 15/100 (15%), Positives = 30/100 (30%), Gaps = 15/100 (15%)
Query: 10 DCVVKDSINFL-------DHINGKKHQRNLGMSMRVERSSLDQVKKRFDM-----NKKKY 57
D V++++ + D ++ + R S Q +K++ +
Sbjct: 859 DGTVRNAMGDIIQFAYGEDGLDATLVE---YQVFDSLRLSTKQFEKKYRIDLMEDRSLSL 915
Query: 58 EQKKKDYDIEQRMRELKEEEEKLKEYRRERRKEKKRKLDD 97
+ + L EE +L R K K D
Sbjct: 916 YMENSIENDSSVQDLLDEEYTQLVADRELLCKFIFPKGDA 955
>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB,
proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR
binding; 6.93A {Bacillus subtilis}
Length = 758
Score = 29.5 bits (67), Expect = 0.27
Identities = 16/70 (22%), Positives = 37/70 (52%), Gaps = 3/70 (4%)
Query: 43 LDQVKKRFDMNKKKYEQKKKDYDIEQRMRELKEEEEKLKEYRRERRKEKKRKLDDGEEEE 102
L +++++ D +K+ + + + E + L++ E++L+E + +K K K G+E
Sbjct: 396 LKELEQKLDEVRKEKDAAVQSQEFE-KAASLRDTEQRLREQVEDTKKSWKEK--QGQENS 452
Query: 103 EGDQSDLAAI 112
E D+A +
Sbjct: 453 EVTVDDIAMV 462
>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 = 0.28
Identities = 16/70 (22%), Positives = 37/70 (52%), Gaps = 3/70 (4%)
Query: 43 LDQVKKRFDMNKKKYEQKKKDYDIEQRMRELKEEEEKLKEYRRERRKEKKRKLDDGEEEE 102
L +++++ D +K+ + + + E + L++ E++L+E + +K K K G+E
Sbjct: 396 LKELEQKLDEVRKEKDAAVQSQEFE-KAASLRDTEQRLREQVEDTKKSWKEK--QGQENS 452
Query: 103 EGDQSDLAAI 112
E D+A +
Sbjct: 453 EVTVDDIAMV 462
>3p8q_A GP5, head protein; virus procapsid particles, virus; 5.20A
{Enterobacteria phage HK97} PDB: 3qpr_A
Length = 385
Score = 29.4 bits (65), Expect = 0.31
Identities = 9/46 (19%), Positives = 24/46 (52%), Gaps = 3/46 (6%)
Query: 70 MRELKEEEEKLKEYRRERRK---EKKRKLDDGEEEEEGDQSDLAAI 112
M EL ++ ++E +++ + +K +++ + + QSDL +
Sbjct: 1 MSELALIQKAIEESQQKMTQLFDAQKAEIESTGQVSKQLQSDLMKV 46
>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels,
nucleotide-binding, nucleotide binding protein; 2.00A
{Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A
3kxk_A
Length = 364
Score = 28.8 bits (65), Expect = 0.38
Identities = 7/28 (25%), Positives = 17/28 (60%)
Query: 66 IEQRMRELKEEEEKLKEYRRERRKEKKR 93
++R+ +L +E E +K ++ + + KR
Sbjct: 149 YKRRINKLMKELESIKIFKEKSIESNKR 176
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl RED
beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces
cerevisiae}
Length = 1688
Score = 29.1 bits (65), Expect = 0.43
Identities = 13/133 (9%), Positives = 29/133 (21%), Gaps = 61/133 (45%)
Query: 13 VKDSINFLDHINGKKHQRNLGMSMRVERSS-LD-----QVKKRFDMNKKKYEQKKKDYDI 66
+ ++ + + K G ++ + ++ D Q+ ++ K Y I
Sbjct: 958 IPETGEYS--VKLLK-----GATLYIPKALRFDRLVAGQIPTGWN---------AKTYGI 1001
Query: 67 EQRMRELKEEEEKLKEYRRERRKEKKR-------------------KLDDGEEEEEGDQS 107
+ + D E +
Sbjct: 1002 S--------------------DDIISQVDPITLFVLVSVVEAFIASGITDPYEMYKYVHV 1041
Query: 108 DLAAIMGFSGFGG 120
SG GG
Sbjct: 1042 SEVGNCSGSGMGG 1054
>4etp_A Kinesin-like protein KAR3; kinesin motor protein, kinesin motor
homology domain, karyog mitosis, microtubules; HET: ADP
EBC; 2.30A {Saccharomyces cerevisiae}
Length = 403
Score = 28.8 bits (65), Expect = 0.44
Identities = 12/49 (24%), Positives = 21/49 (42%), Gaps = 2/49 (4%)
Query: 41 SSLDQVKKRFDMNKKKYEQKKKDYDIEQRMRELKEEEEKLKEYRRERRK 89
S + +K++ K+K K+ I+ +KE E L + RR
Sbjct: 3 SKIAALKEKIAALKEKIAALKEK--IKDTELGMKELNEILIKEETVRRT 49
>3u06_A Protein claret segregational; motor domain, stalk rotation, power
stroke, kinesin-14, MICR binding, NCD, transport,
molecular motor; HET: ADP GOL; 2.35A {Drosophila
melanogaster} PDB: 2ncd_A* 1n6m_A* 1cz7_A* 3l1c_A*
Length = 412
Score = 28.8 bits (65), Expect = 0.45
Identities = 10/50 (20%), Positives = 23/50 (46%), Gaps = 2/50 (4%)
Query: 40 RSSLDQVKKRFDMNKKKYEQKKKDYDIEQRMRELKEEEEKLKEYRRERRK 89
S + +++ E+ + EQ+ EL+ +E+L + ER++
Sbjct: 2 GSMHAALSTEVVHLRQRTEELLRC--NEQQAAELETCKEQLFQSNMERKE 49
>3cw1_L U1 small nuclear ribonucleoprotein C; PRE-mRNA splicing,
spliceosome, RNA-binding domain, SM fold, finger, RNA
recognition motif, 5' splice site; 5.49A {Homo sapiens}
PDB: 1uw2_A 2vrd_A
Length = 77
Score = 27.7 bits (61), Expect = 0.46
Identities = 10/33 (30%), Positives = 17/33 (51%), Gaps = 2/33 (6%)
Query: 1 MLGYYCNVCDCVVKDSINFL--DHINGKKHQRN 31
M +YC+ CD + + H +G+KH+ N
Sbjct: 1 MPKFYCDYCDTYLTHDSPSVRKTHCSGRKHKEN 33
>2ycu_A Non muscle myosin 2C, alpha-actinin; motor protein; HET: AOV; 2.25A
{Homo sapiens} PDB: 1br1_A* 1br4_A* 1br2_A*
Length = 995
Score = 28.9 bits (65), Expect = 0.48
Identities = 12/86 (13%), Positives = 22/86 (25%), Gaps = 6/86 (6%)
Query: 26 KKHQRNLGMSMRVERSSLDQVKKRFDMNKKKYEQKKKDYDIE--QRMRELKEEEEKLKEY 83
+ +NL +S Q + + + E +R ++ +
Sbjct: 914 QAKLKNLEAFDGECQSLEGQSNSDLLSILAQLTELNYNGVPELTERKDTFFAQQWTGVKS 973
Query: 84 RRERRKEKKRKLDDGEEEEEGDQSDL 109
E K E E DL
Sbjct: 974 SAETYKNTLLA----ELERLQKIEDL 995
>2dq0_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; HET: SSA; 2.60A {Pyrococcus
horikoshii} PDB: 2dq1_A* 2dq2_A 2zr2_A* 2zr3_A
Length = 455
Score = 28.3 bits (64), Expect = 0.56
Identities = 15/68 (22%), Positives = 29/68 (42%), Gaps = 6/68 (8%)
Query: 40 RSSLDQVKKRFDMNKKKYEQKKKDYD----IEQRMRELKEEEEKLKEYRRERRKEKKRKL 95
R + + VK + K+ +K K D ++ R +E +L+ R + E ++
Sbjct: 8 RENPELVKND--LIKRGELEKVKWVDEILKLDTEWRTKLKEINRLRHERNKIAVEIGKRR 65
Query: 96 DDGEEEEE 103
GE +E
Sbjct: 66 KKGEPVDE 73
>3ce2_A Putative peptidase; structural genomics, unknown function, P
protein structure initiative; 2.60A {Chlamydophila
abortus}
Length = 618
Score = 28.5 bits (64), Expect = 0.59
Identities = 7/38 (18%), Positives = 12/38 (31%), Gaps = 4/38 (10%)
Query: 67 EQRMRELKEEEEKLKEYR---RERRKEKKRKLDDGEEE 101
E + + L YR + + GEE+
Sbjct: 133 ESLIAQHLSAPC-LAPYRFYLEKIFRLSIHTGTPGEEK 169
>3lu0_C DNA-directed RNA polymerase subunit beta; E. coli RNA polymerase,
nucleotidyltransferase, transcription, transferase;
11.20A {Escherichia coli} PDB: 3iyd_C*
Length = 1342
Score = 28.5 bits (64), Expect = 0.59
Identities = 11/51 (21%), Positives = 27/51 (52%)
Query: 54 KKKYEQKKKDYDIEQRMRELKEEEEKLKEYRRERRKEKKRKLDDGEEEEEG 104
+ E D + + ++ +L E+ ++LK ++ + K+RK+ G++ G
Sbjct: 995 DRWLELGLTDEEKQNQLEQLAEQYDELKHEFEKKLEAKRRKITQGDDLAPG 1045
>3plt_A Sphingolipid long chain base-responsive protein L; eisosomes, LSP1,
PIL1, BAR domain, plasma membrane, SELF-ASS
phosphoprotein; 2.90A {Saccharomyces cerevisiae}
Length = 234
Score = 28.1 bits (62), Expect = 0.63
Identities = 17/68 (25%), Positives = 27/68 (39%), Gaps = 4/68 (5%)
Query: 27 KHQRNLGMSMRVERSSLDQVKKRFDMNKKKYEQKKKDYDIEQRMR----ELKEEEEKLKE 82
K RN+ S++ R +++ K K Q K +EQ + E E +L
Sbjct: 97 KSIRNIEASVQPSRDRKEKITDEIAHLKYKDPQSTKIPVLEQELVRAEAESLVAEAQLSN 156
Query: 83 YRRERRKE 90
RE+ K
Sbjct: 157 ITREKLKA 164
>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain
cytoplasmic; motor protein, AAA+ protein, ASCE protein,
P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma
japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A
Length = 2695
Score = 28.3 bits (63), Expect = 0.64
Identities = 11/101 (10%), Positives = 32/101 (31%), Gaps = 8/101 (7%)
Query: 18 NFLDHINGKKHQRNLGMSMRVERSSLDQVKKRFDMNKKKYEQKKKDYDIEQRMRELKEEE 77
F+D + + + L + ++ ++ +K + + + L
Sbjct: 1847 YFIDGLRALVKL------VTAKYQDLQENQRFVNVGLEKLNESVLKVNELNK--TLSISL 1898
Query: 78 EKLKEYRRERRKEKKRKLDDGEEEEEGDQSDLAAIMGFSGF 118
K + +ER ++ +E G+ + + G
Sbjct: 1899 VKSLTFEKERWLNTTKQFSKTSQELIGNCIISSIYETYFGH 1939
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 28.2 bits (63), Expect = 0.72
Identities = 12/73 (16%), Positives = 31/73 (42%)
Query: 22 HINGKKHQRNLGMSMRVERSSLDQVKKRFDMNKKKYEQKKKDYDIEQRMRELKEEEEKLK 81
+G+ + G+ ++ ++ ++ F+ K + ++ IE+ KE +++
Sbjct: 340 QASGRSSRILNGVLVKGVSVIFEEDEEIFESLKTRLLLIAEEEIIEEAEANWKELVHEVE 399
Query: 82 EYRRERRKEKKRK 94
E RR +E
Sbjct: 400 ESRRRSERELTDT 412
>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 = 27.6 bits (60), Expect = 0.74
Identities = 6/17 (35%), Positives = 10/17 (58%), Gaps = 2/17 (11%)
Query: 67 EQRMRELKEEEEKLKEY 83
E++ LK+ + LK Y
Sbjct: 18 EKQ--ALKKLQASLKLY 32
>3eff_K Voltage-gated potassium channel; FULL length KCSA, bulge helix,
cell membrane, ION transport, ionic channel, membrane,
transmembrane; 3.80A {Streptomyces lividans}
Length = 139
Score = 27.5 bits (61), Expect = 0.86
Identities = 7/46 (15%), Positives = 20/46 (43%), Gaps = 1/46 (2%)
Query: 44 DQVKKRFDMNKKKYEQKKKDYDIEQRMRELKEEEEKLKEYRRERRK 89
+ ++R + E+ ++ + R L E ++L+ + R+
Sbjct: 95 GREQERRGHFVRHSEKAAEE-AYTRTTRALHERFDRLERMLDDNRR 139
>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE;
1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A* 3p1j_A
Length = 260
Score = 27.7 bits (61), Expect = 0.99
Identities = 7/43 (16%), Positives = 15/43 (34%)
Query: 51 DMNKKKYEQKKKDYDIEQRMRELKEEEEKLKEYRRERRKEKKR 93
+ K ++R++E K+ K E +R +
Sbjct: 217 GLYSLIQRSKCGPVGSDERVKEFKQSLIKYMETQRSYTALAEA 259
Score = 26.6 bits (58), Expect = 2.0
Identities = 7/61 (11%), Positives = 21/61 (34%)
Query: 43 LDQVKKRFDMNKKKYEQKKKDYDIEQRMRELKEEEEKLKEYRRERRKEKKRKLDDGEEEE 102
+D ++ + I++ +E++KE+++ K + + E
Sbjct: 199 MDCIEDLLMEKNGDHYTNGLYSLIQRSKCGPVGSDERVKEFKQSLIKYMETQRSYTALAE 258
Query: 103 E 103
Sbjct: 259 A 259
>3mwy_W Chromo domain-containing protein 1; SWI2/SNF2 ATPase, double
chromodomains, hydrolase; HET: ATG; 3.70A {Saccharomyces
cerevisiae}
Length = 800
Score = 27.8 bits (62), Expect = 1.0
Identities = 14/75 (18%), Positives = 29/75 (38%), Gaps = 4/75 (5%)
Query: 47 KKRFDMNKKKYEQKKKDYDIEQRM-RELKEEEEKLKEYRRERRKEKK---RKLDDGEEEE 102
KR D K++ + + ++ + E E + +E R + +E R +D
Sbjct: 100 LKRLDNYCKQFIIEDQQVRLDPYVTAEDIEIMDMERERRLDEFEEFHVPERIIDSQRASL 159
Query: 103 EGDQSDLAAIMGFSG 117
E S L ++ +
Sbjct: 160 EDGTSQLQYLVKWRR 174
>3uca_A Geranyltranstransferase; isoprenoid synthesis, isoprenoid
diphosphate synthase; 2.00A {Clostridium perfringens}
Length = 324
Score = 27.2 bits (61), Expect = 1.2
Identities = 11/62 (17%), Positives = 23/62 (37%), Gaps = 1/62 (1%)
Query: 61 KKDYDIEQRMRELKEEEEKLKEYRRERRKEKKRKLDDGEEEEEGDQSDLAAIMGFSGFGG 120
++ + M++ K E+ ++E + L ++ L M +S G
Sbjct: 15 TENLYFQSMMKKRKTLED-TAMNINSLKEEVDQSLKAYFNKDREYNKVLYDSMAYSINVG 73
Query: 121 GK 122
GK
Sbjct: 74 GK 75
>4dgw_A PRE-mRNA-splicing factor PRP9; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 402
Score = 27.5 bits (60), Expect = 1.3
Identities = 22/109 (20%), Positives = 42/109 (38%), Gaps = 5/109 (4%)
Query: 3 GYYCNVCDCVVKDSINFLDHINGKKHQRNLGMSMRVERS-----SLDQVKKRFDMNKKKY 57
G YC C K S F H+ GK H++N S + + +
Sbjct: 292 GIYCPFCSRWFKTSSVFESHLVGKIHKKNESKRRNFVYSEYKLHRYLKYLNDEFSRTRSF 351
Query: 58 EQKKKDYDIEQRMRELKEEEEKLKEYRRERRKEKKRKLDDGEEEEEGDQ 106
++K + +RM E+ +K + + +++ + DGE+ + Q
Sbjct: 352 VERKLAFTANERMAEMDILTQKYEAPAYDSTEKEGAEQVDGEQRDGQLQ 400
>1fgj_A Hydroxylamine oxidoreductase; nitrification; HET: HEM HEC; 2.80A
{Nitrosomonas europaea} SCOP: a.138.1.3
Length = 546
Score = 27.5 bits (59), Expect = 1.4
Identities = 9/58 (15%), Positives = 22/58 (37%), Gaps = 3/58 (5%)
Query: 64 YDIEQRMRELKEEEEKLKEYRRERRKEKKRKLDDGEEEEEGDQSDLAAIMGFSGFGGG 121
+ + E+++E K+ + + + +G++ D + G GGG
Sbjct: 472 GPMNRAYVEIQDEYTKM---QELSALQARVNKLEGKQTSLLDLKGTGEKISLGGLGGG 526
>3lvh_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 9.00A {Bos
taurus}
Length = 205
Score = 26.8 bits (58), Expect = 1.8
Identities = 8/52 (15%), Positives = 27/52 (51%), Gaps = 2/52 (3%)
Query: 54 KKKYEQKKKDYDIEQRMRELKEEEEKLKE--YRRERRKEKKRKLDDGEEEEE 103
+++ ++ D + +E +E+ +K E +R+ + +K K+++ ++
Sbjct: 108 EQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKA 159
Score = 25.7 bits (55), Expect = 4.9
Identities = 8/32 (25%), Positives = 17/32 (53%)
Query: 72 ELKEEEEKLKEYRRERRKEKKRKLDDGEEEEE 103
L +E E ++++R E+RK + + E+
Sbjct: 94 RLTQEPESIRKWREEQRKRLQELDAASKVMEQ 125
>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding,
nucleotide-binding, phosphorylation, acetylation,
alternative splicing, coiled coil; HET: GDP GTP; 4.00A
{Homo sapiens}
Length = 427
Score = 27.0 bits (59), Expect = 1.9
Identities = 16/73 (21%), Positives = 34/73 (46%)
Query: 37 RVERSSLDQVKKRFDMNKKKYEQKKKDYDIEQRMRELKEEEEKLKEYRRERRKEKKRKLD 96
R + K +K Q+ + + + EL+++EE++++ +R KEK+ +L
Sbjct: 299 RRCKLEEMGFKDTDPDSKPFSLQETYEAKRNEFLGELQKKEEEMRQMFVQRVKEKEAELK 358
Query: 97 DGEEEEEGDQSDL 109
+ E+E L
Sbjct: 359 EAEKELHEKFDRL 371
Score = 24.7 bits (53), Expect = 9.6
Identities = 16/80 (20%), Positives = 31/80 (38%), Gaps = 10/80 (12%)
Query: 47 KKRFDMNKKKYEQKKKDYDIEQRMR----------ELKEEEEKLKEYRRERRKEKKRKLD 96
++ F K+ E + K+ + E + E K+ E+K K E K+RK
Sbjct: 343 RQMFVQRVKEKEAELKEAEKELHEKFDRLKKLHQDEKKKLEDKKKSLDDEVNAFKQRKTA 402
Query: 97 DGEEEEEGDQSDLAAIMGFS 116
+ +G Q+ + +
Sbjct: 403 AELLQSQGSQAGGSQTLKRD 422
>3o0f_A Putative metal-dependent phosphoesterase; structural genomics,
joint center for structural genomics, J protein
structure initiative; HET: AMP; 1.94A {Bifidobacterium
adolescentis} PDB: 3e0f_A*
Length = 301
Score = 26.9 bits (60), Expect = 2.0
Identities = 4/35 (11%), Positives = 9/35 (25%)
Query: 64 YDIEQRMRELKEEEEKLKEYRRERRKEKKRKLDDG 98
+ + + + R R K +L
Sbjct: 90 FQYDPSNEHISSMFANTRAARLRRTKRMVERLSQD 124
>2dq3_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural genomics,
NPPSFA, nationa on protein structural and functional
analyses; HET: SSA; 3.00A {Aquifex aeolicus}
Length = 425
Score = 26.3 bits (59), Expect = 2.7
Identities = 16/67 (23%), Positives = 30/67 (44%), Gaps = 5/67 (7%)
Query: 40 RSSLDQVKKRFDMNKKKYEQKKKDYDI---EQRMRELKEEEEKLKEYRRERRKEKKRKLD 96
R D VK+R + + E + ++R RE+ + E L+ R + KE +
Sbjct: 8 REKPDYVKER--LATRDKELVSLVDKVLELDKRRREIIKRLEALRSERNKLSKEIGKLKR 65
Query: 97 DGEEEEE 103
+G++ E
Sbjct: 66 EGKDTTE 72
>2jes_A Portal protein; DNA translocation, molecular motor, VIRA protein,
viral protein; 3.4A {Bacteriophage SPP1}
Length = 503
Score = 26.3 bits (57), Expect = 2.8
Identities = 7/44 (15%), Positives = 19/44 (43%)
Query: 65 DIEQRMRELKEEEEKLKEYRRERRKEKKRKLDDGEEEEEGDQSD 108
D E+ + ++EE + E + ++ D E++ ++
Sbjct: 452 DPEEELARIEEEMNQYAEMQGNLLDDEGGDDDLEEDDPNAGAAE 495
>3oqs_A Importin subunit alpha-2; importin alpha, karyopherin alpha,
nuclear localisation SIGN recognition, chloride
intracellular channel 4, CLIC4 NLS; 2.00A {Mus musculus}
PDB: 3rz9_A 3rzx_A 1q1s_C 1q1t_C 3tpo_A 3knd_A 1ejy_I
1iq1_C 1ejl_I 1pjn_B 1pjm_B 3q5u_A 3fey_C 3fex_C 1ial_A
1y2a_C 3btr_C 3l3q_A* 3ve6_A 2c1m_A ...
Length = 510
Score = 26.5 bits (58), Expect = 2.9
Identities = 7/62 (11%), Positives = 15/62 (24%), Gaps = 8/62 (12%)
Query: 52 MNKKKYEQKKKDYDIEQRMRELKEEEEKLKEYRRERRKEKKRKLDDGEEEEEGDQSDLAA 111
M+ + M+E K ER+ L ++++
Sbjct: 1 MHHHHHHSSGLV-PRGSGMKETA----AAK---FERQHMDSPDLGTDDDDKAMADIGSNQ 52
Query: 112 IM 113
Sbjct: 53 GT 54
>1zr9_A Zinc finger protein 593; DNA binding, structural genomics, PSI,
protein structure initiative, center for eukaryotic
structural genomics, CESG; NMR {Homo sapiens} SCOP:
g.37.1.4
Length = 124
Score = 25.8 bits (56), Expect = 2.9
Identities = 9/29 (31%), Positives = 12/29 (41%)
Query: 4 YYCNVCDCVVKDSINFLDHINGKKHQRNL 32
+ C C DS N H K H++ L
Sbjct: 51 HRCLACARYFIDSTNLKTHFRSKDHKKRL 79
>3bbn_M Ribosomal protein S13; small ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 145
Score = 25.8 bits (57), Expect = 3.1
Identities = 8/33 (24%), Positives = 16/33 (48%), Gaps = 1/33 (3%)
Query: 67 EQRMRELKEEE-EKLKEYRRERRKEKKRKLDDG 98
+ ++L EEE L++ +R R +R +
Sbjct: 86 NKVTKDLSEEEVIILRKEKRFNRVAIERLKEIR 118
>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP
hydrolysis, GDP, GMP, dynamin related, large GTPase
family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens}
SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A*
2bc9_A* 2d4h_A*
Length = 592
Score = 26.5 bits (57), Expect = 3.5
Identities = 13/64 (20%), Positives = 30/64 (46%)
Query: 26 KKHQRNLGMSMRVERSSLDQVKKRFDMNKKKYEQKKKDYDIEQRMRELKEEEEKLKEYRR 85
++H + L M +R L + ++R K + +++ ++ R +K E + L+ R
Sbjct: 525 QEHLKQLTEKMENDRVQLLKEQERTLALKLQEQEQLLKEGFQKESRIMKNEIQDLQTKMR 584
Query: 86 ERRK 89
R+
Sbjct: 585 RRKA 588
>2etd_A LEMA protein; bromodomain-like fold, structural genomics, joint
center for structural genomics, JCSG, protein structure
initiative; 2.28A {Thermotoga maritima} SCOP: a.29.9.1
Length = 171
Score = 25.9 bits (57), Expect = 3.6
Identities = 11/45 (24%), Positives = 16/45 (35%)
Query: 41 SSLDQVKKRFDMNKKKYEQKKKDYDIEQRMRELKEEEEKLKEYRR 85
+ L R + Y D + Q M EL E ++ RR
Sbjct: 80 AELSSALSRLLAIAENYPNLXADANFRQLMDELAGTENRIAVARR 124
>3lkd_A Type I restriction-modification system methyltransferase subunit;
Q5M500_STRT2, STU0711, NESG, SUR80, structural genomics,
PSI-2; 2.25A {Streptococcus thermophilus}
Length = 542
Score = 26.1 bits (58), Expect = 3.8
Identities = 5/66 (7%), Positives = 27/66 (40%), Gaps = 5/66 (7%)
Query: 42 SLDQVKKR-FDMNKKKY---EQKKKDYDIEQRMRELKEEEEKLKEYRRERRKEKKRKLDD 97
S +++ + +++N +Y ++++ + + + ++ + ++ +L
Sbjct: 458 SFEEIVENDYNLNIPRYVDTFEEEEVEPLTEIVAKINQTNATIESQTASLLDMLG-QLHG 516
Query: 98 GEEEEE 103
E +
Sbjct: 517 TTPEAD 522
>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding,
nucleotide-binding, phosphorylation, acetylation,
alternative splicing, coiled coil; HET: GDP GTP; 4.00A
{Homo sapiens}
Length = 361
Score = 26.0 bits (56), Expect = 4.0
Identities = 9/53 (16%), Positives = 23/53 (43%)
Query: 47 KKRFDMNKKKYEQKKKDYDIEQRMRELKEEEEKLKEYRRERRKEKKRKLDDGE 99
+ + K + E KD + ++ EL+ +E + + + + + + DG
Sbjct: 303 RLKRGGRKVENEDMNKDQILLEKEAELRRMQEMIARMQAQMQMQMQGGDGDGG 355
Score = 24.8 bits (53), Expect = 10.0
Identities = 6/57 (10%), Positives = 19/57 (33%)
Query: 37 RVERSSLDQVKKRFDMNKKKYEQKKKDYDIEQRMRELKEEEEKLKEYRRERRKEKKR 93
R ER K + K +K+ ++ + + + +++ + +
Sbjct: 300 RSERLKRGGRKVENEDMNKDQILLEKEAELRRMQEMIARMQAQMQMQMQGGDGDGGA 356
>3lom_A Geranyltranstransferase; geranyltransferase, structural genomics,
PSI, protein structure initiative, nysgrc; 2.30A
{Legionella pneumophila subsp}
Length = 313
Score = 25.7 bits (57), Expect = 4.1
Identities = 7/46 (15%), Positives = 18/46 (39%)
Query: 77 EEKLKEYRRERRKEKKRKLDDGEEEEEGDQSDLAAIMGFSGFGGGK 122
+ K+ + + + L+ E + + + ++ F GGK
Sbjct: 6 TQMNKQVIDKYTQRHELYLEQLLNEIIIPAPQIRSALHYALFSGGK 51
>2qag_C Septin-7; cell cycle, cell division, GTP-binding,
nucleotide-binding, phosphorylation, acetylation,
alternative splicing, coiled coil; HET: GDP GTP; 4.00A
{Homo sapiens}
Length = 418
Score = 25.9 bits (56), Expect = 4.3
Identities = 21/81 (25%), Positives = 38/81 (46%), Gaps = 2/81 (2%)
Query: 44 DQVKKRFDMNKKKYEQKKKDYDIEQRMRELKEEEEKLKEYRRERRKEKKRKLDDGEEEEE 103
++++ F+M K+ QK KD E ++ E+ +K E + + +EK+R+ +D + E
Sbjct: 336 MEMEQVFEMKVKEKVQKLKD--SEAELQRRHEQMKKNLEAQHKELEEKRRQFEDEKANWE 393
Query: 104 GDQSDLAAIMGFSGFGGGKKK 124
Q L KKK
Sbjct: 394 AQQRILEQQNSSRTLEKNKKK 414
>1wa5_B Importin alpha subunit; nuclear transport/complex, nuclear
transport, exportin, RAN GTPase, protein transport; HET:
GTP; 2.0A {Saccharomyces cerevisiae} SCOP: a.118.1.1
PDB: 1un0_A 2c1t_A 1bk5_A 1ee5_A 1bk6_A 1ee4_A
Length = 530
Score = 25.8 bits (56), Expect = 4.7
Identities = 8/58 (13%), Positives = 28/58 (48%), Gaps = 1/58 (1%)
Query: 54 KKKYEQKKKDYDIEQRMRELKEEEEKLKEYRRERRKEKKRKLDDGEEEEEGDQSDLAA 111
+ ++ K + + ++ R ++ +L++ +R+ K+R + + D+ D ++
Sbjct: 18 RTNFKNKGR-FSADELRRRRDTQQVELRKAKRDEALAKRRNFIPPTDGADSDEEDESS 74
>1m1h_A Transcription antitermination protein NUSG; transcription
termination, RNP motif, immunoglobulin fold, nucleic
acid interaction; 1.95A {Aquifex aeolicus} SCOP:
b.114.1.1 d.58.42.1 PDB: 1m1g_A 1npp_A 1npr_A
Length = 248
Score = 25.4 bits (56), Expect = 5.2
Identities = 7/45 (15%), Positives = 14/45 (31%), Gaps = 7/45 (15%)
Query: 57 YEQKKKDYDIEQRMRELKE------EEEKLKEYRRERRKEKKRKL 95
E K + +E ++ KE + E + K+
Sbjct: 91 GEVKVVES-VEGDTCVNAPPISKPGQKITCKENKTEAKIVLDNKI 134
>3pfr_A Mandelate racemase/muconate lactonizing protein; emolase
superfamily fold, D-glucarate dehydratase, D-glucara
isomerase; HET: GKR; 1.90A {Actinobacillus succinogenes}
PDB: 3n6j_A 3n6h_A*
Length = 455
Score = 25.5 bits (56), Expect = 5.2
Identities = 2/22 (9%), Positives = 7/22 (31%)
Query: 77 EEKLKEYRRERRKEKKRKLDDG 98
+ + + +K +D
Sbjct: 405 MDNVLKAHELHKKLPNGARNDA 426
>1wxq_A GTP-binding protein; structural genomics, riken structural
genomics/proteomics initiative, RSGI, NPPSFA; 2.60A
{Pyrococcus horikoshii} SCOP: c.37.1.8 d.15.10.2
Length = 397
Score = 25.7 bits (57), Expect = 5.3
Identities = 4/60 (6%), Positives = 16/60 (26%)
Query: 43 LDQVKKRFDMNKKKYEQKKKDYDIEQRMRELKEEEEKLKEYRRERRKEKKRKLDDGEEEE 102
+ K +D K+ + +K + + + + +++
Sbjct: 143 YGILSKGWDKFAKRIKLQKIKLESAIAEHLSGIGVNENDVWEAMHKLNLPEDPTKWSQDD 202
>3lsn_A Geranyltranstransferase; structural genomics, protein structure
initiative, NEW YORK structural genomix research
consortium, nysgxrc; HET: MSE; 1.35A {Pseudomonas
fluorescens} PDB: 3lji_A* 3p41_A*
Length = 304
Score = 25.6 bits (57), Expect = 5.4
Identities = 8/43 (18%), Positives = 14/43 (32%)
Query: 80 LKEYRRERRKEKKRKLDDGEEEEEGDQSDLAAIMGFSGFGGGK 122
L Y+ + + + + L M +S GGK
Sbjct: 3 LTAYQASSQARVDAAMHTLFTAPSPELARLYEAMRYSVMNGGK 45
>2y7c_A Type-1 restriction enzyme ecoki specificity prote; transferase;
18.00A {Escherichia coli} PDB: 2y7h_A*
Length = 464
Score = 25.5 bits (56), Expect = 5.6
Identities = 10/80 (12%), Positives = 25/80 (31%), Gaps = 13/80 (16%)
Query: 58 EQKK-------KDYDIEQRMRELKEEEEKLKEYRRE------RRKEKKRKLDDGEEEEEG 104
EQK ++ ++ + LK +R+ K ++ + +
Sbjct: 164 EQKIIAEKLDTLLAQVDSTKARFEQIPQILKRFRQAVLGGAVNGKLTEKWRNFEPQHSVF 223
Query: 105 DQSDLAAIMGFSGFGGGKKK 124
+ + +I+ G K
Sbjct: 224 KKLNFESILTELRNGLSSKP 243
>1qoy_A Hemolysin E; toxin, membrane pore former, cytolysin, pores; 2.0A
{Escherichia coli} SCOP: h.4.4.1 PDB: 2wcd_A
Length = 318
Score = 25.6 bits (55), Expect = 5.9
Identities = 10/64 (15%), Positives = 24/64 (37%)
Query: 34 MSMRVERSSLDQVKKRFDMNKKKYEQKKKDYDIEQRMRELKEEEEKLKEYRRERRKEKKR 93
M+ V +++ VK + + K D + E ++L +++E +
Sbjct: 16 MAEIVADKTVEVVKNAIETADGALDLYNKYLDQVIPWQTFDETIKELSRFKQEYSQAASV 75
Query: 94 KLDD 97
+ D
Sbjct: 76 LVGD 79
>2acv_A Triterpene UDP-glucosyl transferase UGT71G1; glycosyltransferase;
HET: UDP; 2.00A {Medicago truncatula} SCOP: c.87.1.10
PDB: 2acw_A*
Length = 463
Score = 25.3 bits (56), Expect = 6.0
Identities = 10/63 (15%), Positives = 25/63 (39%), Gaps = 18/63 (28%)
Query: 32 LGMSMRVERSSLDQVKKRFDMNKKKYEQKKKDYDIEQRMRELKEEEEKLKEYRRERRKEK 91
+G+ +RV+ V E +IE+ +++L +++ ++ +E
Sbjct: 395 VGLGLRVDYRKGSDVVAA--------E------EIEKGLKDLMDKDSI----VHKKVQEM 436
Query: 92 KRK 94
K
Sbjct: 437 KEM 439
>2kq9_A DNAK suppressor protein; zinc binding protein, structural genomics,
PSI-2, protein ST initiative; NMR {Agrobacterium
tumefaciens str}
Length = 112
Score = 24.7 bits (54), Expect = 6.3
Identities = 10/42 (23%), Positives = 19/42 (45%)
Query: 72 ELKEEEEKLKEYRRERRKEKKRKLDDGEEEEEGDQSDLAAIM 113
++ E+ L++ +RE + + D EE D D A+
Sbjct: 8 NVESYEKILRDRQRELYRRLHKIEADFEEPRNPDDEDRASER 49
>3p8r_A Geranyltranstransferase; isoprenyl synthase, structural genomics,
PSI, protein struct initiative, nysgrc; 2.50A {Vibrio
cholerae}
Length = 302
Score = 25.3 bits (56), Expect = 6.5
Identities = 8/46 (17%), Positives = 13/46 (28%)
Query: 77 EEKLKEYRRERRKEKKRKLDDGEEEEEGDQSDLAAIMGFSGFGGGK 122
E ++ ++LD L M + GGK
Sbjct: 6 HHHSLEALSSYQQRNNQQLDQWLNRIPFQTLPLIEAMRYGLLLGGK 51
>1yvu_A Hypothetical protein AQ_1447; RNAse H fold, RNA binding protein,
gene regulation; 2.90A {Aquifex aeolicus} SCOP:
b.34.14.1 c.55.3.10 PDB: 2f8s_A 2f8t_A 2nub_A
Length = 706
Score = 25.5 bits (55), Expect = 6.6
Identities = 17/68 (25%), Positives = 30/68 (44%), Gaps = 4/68 (5%)
Query: 31 NLGMSMRVERS-SLDQVKKRFDMNKKKYEQKKKDYDIEQRMRE---LKEEEEKLKEYRRE 86
+L + R++ +L + +R D N K+ K D R+++ KE+ E+ E
Sbjct: 156 HLDLKFRIQPFETLQTLLERNDFNPKRIRVKPIGIDFVGRVQDVFKAKEKGEEFFRLCME 215
Query: 87 RRKEKKRK 94
R K K
Sbjct: 216 RSTHKSSK 223
>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation,
ATP-binding, cytoplasm, mitochondrion,
nucleotide-binding, nucleus; 2.95A {Saccharomyces
cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*
Length = 409
Score = 25.4 bits (56), Expect = 6.6
Identities = 9/35 (25%), Positives = 16/35 (45%), Gaps = 6/35 (17%)
Query: 4 YYCNVCDCVVKDSINFL------DHINGKKHQRNL 32
Y CNVC ++ + H+ ++H+ NL
Sbjct: 361 YTCNVCRNADGKNVVAIGEKYWKIHLGSRRHKSNL 395
>3qi3_A High affinity CGMP-specific 3',5'-cyclic phosphod 9A; mutation,
glutamine switch, hydrolase-hydrolase inhibitor CO; HET:
PDB; 2.30A {Homo sapiens} PDB: 3qi4_A*
Length = 533
Score = 25.4 bits (55), Expect = 7.2
Identities = 10/60 (16%), Positives = 24/60 (40%), Gaps = 7/60 (11%)
Query: 48 KRFDMNKKKYEQKKKDYDIEQRMRELKEEEEKLKEYRRERRKEKKRKLDDGEEEEEGDQS 107
+ ++ +YE+ K+ D + +++ + EK R+ + EGD +
Sbjct: 481 QPLWESRDRYEELKRIDDAMKELQKKTDSLTSGAT-------EKSRERSRDVKNSEGDCA 533
>1zbt_A RF-1, peptide chain release factor 1; peptide chain release factor
1 (RF-1), structural joint center for structural
genomics, JCSG; 2.34A {Streptococcus mutans}
Length = 371
Score = 25.2 bits (56), Expect = 7.4
Identities = 12/63 (19%), Positives = 29/63 (46%), Gaps = 4/63 (6%)
Query: 39 ERSSLDQVKKRFDMNKKKYEQKKKDYDIEQRMRELKEEEEKLKEYRRERRKEKKRKLDDG 98
E ++ + + ++Y+Q ++ Q M + + +L+E +E K K ++
Sbjct: 51 EEANSRETVAVY----REYKQVVQNIADAQEMIKDASGDPELEEMAKEELKNSKVAKEEY 106
Query: 99 EEE 101
EE+
Sbjct: 107 EEK 109
>2yb1_A Amidohydrolase; HET: AMP; 1.90A {Chromobacterium violaceum} PDB:
2yb4_A
Length = 292
Score = 24.9 bits (55), Expect = 8.1
Identities = 7/32 (21%), Positives = 13/32 (40%)
Query: 64 YDIEQRMRELKEEEEKLKEYRRERRKEKKRKL 95
I+ L + ++E R ER ++ L
Sbjct: 79 LGIDPAEPALAAGLKSIREGRLERARQMGASL 110
>3qx3_A DNA topoisomerase 2-beta; toprim domain, winged-helix domain,
coiled-coil domain, DNA and cleavage, nucleus; HET: DNA
EVP; 2.16A {Homo sapiens}
Length = 803
Score = 25.1 bits (54), Expect = 8.2
Identities = 10/61 (16%), Positives = 28/61 (45%), Gaps = 1/61 (1%)
Query: 32 LGMSM-RVERSSLDQVKKRFDMNKKKYEQKKKDYDIEQRMRELKEEEEKLKEYRRERRKE 90
L MS+ + + ++++ K+ D ++ K+ + +L E+L + + R++
Sbjct: 724 LNMSLWSLTKEKVEELIKQRDAKGREVNDLKRKSPSDLWKEDLAAFVEELDKVESQERED 783
Query: 91 K 91
Sbjct: 784 G 784
>2nx8_A TRNA-specific adenosine deaminase; TAD, hydrolase; 2.00A
{Streptococcus pyogenes serotype M6}
Length = 179
Score = 24.8 bits (55), Expect = 8.2
Identities = 6/35 (17%), Positives = 15/35 (42%), Gaps = 4/35 (11%)
Query: 73 LKEE-EEKLKEY---RRERRKEKKRKLDDGEEEEE 103
L + ++ + RER+K K + + + +
Sbjct: 145 LAADCANIMQTFFRQGRERKKIAKHLIKEQSDPFD 179
>3lwe_A M-phase phosphoprotein 8; MPP8, structural genomics, structural
genomics consortium, S repeat, nucleus, cell cycle;
2.05A {Homo sapiens} PDB: 3r93_A* 3svm_A* 3qo2_A*
Length = 62
Score = 23.8 bits (52), Expect = 8.3
Identities = 11/52 (21%), Positives = 25/52 (48%), Gaps = 4/52 (7%)
Query: 46 VKKRFDMNKKKYEQKKKDYDIEQRMRE----LKEEEEKLKEYRRERRKEKKR 93
+ + + K Y+ + K Y + E L++ +E L E+R++ + K +
Sbjct: 11 LDMKTEGGKVLYKVRWKGYTSDDDTWEPEIHLEDCKEVLLEFRKKIAENKAK 62
>1ykh_B RNA polymerase II holoenzyme component SRB7; gene regulation; 3.00A
{Saccharomyces cerevisiae} SCOP: a.252.1.1
Length = 132
Score = 24.6 bits (53), Expect = 8.7
Identities = 4/36 (11%), Positives = 21/36 (58%)
Query: 65 DIEQRMRELKEEEEKLKEYRRERRKEKKRKLDDGEE 100
+ +++ L+++ ++++ + E K+K++ + +
Sbjct: 89 EQLRKIDMLQKKLVEVEDEKIEAIKKKEKLMRHVDS 124
>1v8k_A Kinesin-like protein KIF2C; microtubule destabilizer, structural P;
HET: ANP; 2.25A {Mus musculus} SCOP: c.37.1.9 PDB:
1v8j_A* 2gry_A*
Length = 410
Score = 24.9 bits (55), Expect = 8.9
Identities = 9/41 (21%), Positives = 18/41 (43%)
Query: 68 QRMRELKEEEEKLKEYRRERRKEKKRKLDDGEEEEEGDQSD 108
+R + +E EK+K R E+R + +E + +
Sbjct: 3 RRKSCIVKEMEKMKNKREEKRAQNSELRIKRAQEYDSSFPN 43
>1z9b_A Translation initiation factor IF-2; protein synthesis translation
intiation IF2 FMet-tRNA structure; NMR {Geobacillus
stearothermophilus}
Length = 135
Score = 24.5 bits (54), Expect = 9.1
Identities = 10/43 (23%), Positives = 20/43 (46%), Gaps = 1/43 (2%)
Query: 71 RELKEEEEKLKEYRRERRKEKKRKLDD-GEEEEEGDQSDLAAI 112
EL + + +R + + LDD E+ ++G+ +L I
Sbjct: 3 FELGTRGSSRVDLQEQRSVKTRVSLDDLFEQIKQGEMKELNLI 45
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
0.314 0.134 0.375
Gapped
Lambda K H
0.267 0.0505 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,022,639
Number of extensions: 120202
Number of successful extensions: 1215
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1097
Number of HSP's successfully gapped: 417
Length of query: 124
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 42
Effective length of database: 4,412,271
Effective search space: 185315382
Effective search space used: 185315382
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 51 (24.0 bits)