RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12244
(257 letters)
>2ywe_A GTP-binding protein LEPA; G domain, beta-barrel, ferredoxin-like
domain, structural GE NPPSFA; 2.05A {Aquifex aeolicus}
PDB: 2ywf_A* 2ywg_A* 2ywh_A*
Length = 600
Score = 205 bits (525), Expect = 1e-62
Identities = 72/164 (43%), Positives = 98/164 (59%), Gaps = 28/164 (17%)
Query: 23 IPIARIRNFSIIAHVDHGKSTLADRLLEMTGTVLS-SGSSQVLDSLQVEQERGITVKAQT 81
+ +RNF IIAHVDHGKSTLADRLLE TG + Q+LD+L VE+ERGITVK Q
Sbjct: 1 MEQKNVRNFCIIAHVDHGKSTLADRLLEYTGAISEREKREQLLDTLDVERERGITVKMQA 60
Query: 82 ASLRYTSILDGEEYLLNLIDTPGHVDFSNEVTRSLAACQGVVLLIDA------------- 128
+ Y + DG Y L+LIDTPGHVDFS EV+R+LAAC+G +LLIDA
Sbjct: 61 VRMFYKA-KDGNTYKLHLIDTPGHVDFSYEVSRALAACEGALLLIDASQGIEAQTVANFW 119
Query: 129 -------------NQVDLKNANPEACEEQLQTLFNIDKKSVLRI 159
N++DL +A+ + ++Q++ + +D + +
Sbjct: 120 KAVEQDLVIIPVINKIDLPSADVDRVKKQIEEVLGLDPEEAILA 163
Score = 112 bits (283), Expect = 2e-28
Identities = 37/63 (58%), Positives = 44/63 (69%), Gaps = 1/63 (1%)
Query: 196 IPIARIRNFSIIAHVDHGKSTLADRLLEMTGTVLS-SGSSQVLDSLQVEQERGITVKAQT 254
+ +RNF IIAHVDHGKSTLADRLLE TG + Q+LD+L VE+ERGITVK Q
Sbjct: 1 MEQKNVRNFCIIAHVDHGKSTLADRLLEYTGAISEREKREQLLDTLDVERERGITVKMQA 60
Query: 255 ASL 257
+
Sbjct: 61 VRM 63
>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane,
nucleotide-binding, translation; 2.80A {Escherichia
coli} PDB: 3deg_C*
Length = 599
Score = 204 bits (521), Expect = 3e-62
Identities = 73/162 (45%), Positives = 102/162 (62%), Gaps = 28/162 (17%)
Query: 25 IARIRNFSIIAHVDHGKSTLADRLLEMTGTVLS-SGSSQVLDSLQVEQERGITVKAQTAS 83
+ IRNFSIIAH+DHGKSTL+DR++++ G + +QVLDS+ +E+ERGIT+KAQ+ +
Sbjct: 1 MKNIRNFSIIAHIDHGKSTLSDRIIQICGGLSDREMEAQVLDSMDLERERGITIKAQSVT 60
Query: 84 LRYTSILDGEEYLLNLIDTPGHVDFSNEVTRSLAACQGVVLLIDA--------------- 128
L Y + DGE Y LN IDTPGHVDFS EV+RSLAAC+G +L++DA
Sbjct: 61 LDYKA-SDGETYQLNFIDTPGHVDFSYEVSRSLAACEGALLVVDAGQGVEAQTLANCYTA 119
Query: 129 -----------NQVDLKNANPEACEEQLQTLFNIDKKSVLRI 159
N++DL A+PE E+++ + ID +R
Sbjct: 120 MEMDLEVVPVLNKIDLPAADPERVAEEIEDIVGIDATDAVRC 161
Score = 112 bits (282), Expect = 2e-28
Identities = 34/61 (55%), Positives = 49/61 (80%), Gaps = 1/61 (1%)
Query: 198 IARIRNFSIIAHVDHGKSTLADRLLEMTGTVLS-SGSSQVLDSLQVEQERGITVKAQTAS 256
+ IRNFSIIAH+DHGKSTL+DR++++ G + +QVLDS+ +E+ERGIT+KAQ+ +
Sbjct: 1 MKNIRNFSIIAHIDHGKSTLSDRIIQICGGLSDREMEAQVLDSMDLERERGITIKAQSVT 60
Query: 257 L 257
L
Sbjct: 61 L 61
>1n0u_A EF-2, elongation factor 2; G-protein, CIS-proline, translation;
HET: SO1; 2.12A {Saccharomyces cerevisiae} SCOP:
b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB:
1n0v_C 1s1h_T 2e1r_A* 2npf_A* 2p8w_T* 3dny_T 3b82_A*
1zm2_A* 1zm3_A* 1zm4_A* 1zm9_A* 2p8x_T* 2p8y_T* 2p8z_T*
2zit_A* 1u2r_A* 3b78_A* 3b8h_A*
Length = 842
Score = 135 bits (342), Expect = 2e-36
Identities = 49/114 (42%), Positives = 71/114 (62%), Gaps = 12/114 (10%)
Query: 27 RIRNFSIIAHVDHGKSTLADRLLEMTGTVLS--SGSSQVLDSLQVEQERGITVKAQTASL 84
+RN S+IAHVDHGKSTL D L++ G + + +G ++ D+ + EQERGIT+K+ SL
Sbjct: 18 NVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISL 77
Query: 85 RY----------TSILDGEEYLLNLIDTPGHVDFSNEVTRSLAACQGVVLLIDA 128
DG +L+NLID+PGHVDFS+EVT +L G ++++D
Sbjct: 78 YSEMSDEDVKEIKQKTDGNSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDT 131
Score = 77.8 bits (191), Expect = 2e-16
Identities = 29/60 (48%), Positives = 42/60 (70%), Gaps = 2/60 (3%)
Query: 200 RIRNFSIIAHVDHGKSTLADRLLEMTGTVLS--SGSSQVLDSLQVEQERGITVKAQTASL 257
+RN S+IAHVDHGKSTL D L++ G + + +G ++ D+ + EQERGIT+K+ SL
Sbjct: 18 NVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISL 77
>2dy1_A Elongation factor G; translocation, GTP complex, structural
genomics, NPPSFA; HET: GTP; 1.60A {Thermus thermophilus}
SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1
PDB: 1wdt_A*
Length = 665
Score = 94.1 bits (235), Expect = 3e-22
Identities = 28/109 (25%), Positives = 46/109 (42%), Gaps = 10/109 (9%)
Query: 24 PIARIRNFSIIAHVDHGKSTLADRLLEMTGTVLSSGS----SQVLDSLQVEQERGITVKA 79
A IR +++ H GK+TL + LL TG G + D + TV+
Sbjct: 5 GGAMIRTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRT 64
Query: 80 QTASLRYTSILDGEEYLLNLIDTPGHVDFSNEVTRSLAACQGVVLLIDA 128
A L + + + L+D PG+ DF E+ +L A ++ + A
Sbjct: 65 GVAPLLF------RGHRVFLLDAPGYGDFVGEIRGALEAADAALVAVSA 107
Score = 54.1 bits (131), Expect = 1e-08
Identities = 16/58 (27%), Positives = 23/58 (39%), Gaps = 4/58 (6%)
Query: 197 PIARIRNFSIIAHVDHGKSTLADRLLEMTGTVLSSGS----SQVLDSLQVEQERGITV 250
A IR +++ H GK+TL + LL TG G + D + TV
Sbjct: 5 GGAMIRTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTV 62
>2rdo_7 EF-G, elongation factor G; elongation factor G, EF-G, RRF, GDPNP,
50S subunit, cryo-EM, REAL-space refinement,
ribonucleoprotein; 9.10A {Escherichia coli} PDB: 3j0e_H
Length = 704
Score = 93.0 bits (232), Expect = 1e-21
Identities = 47/115 (40%), Positives = 66/115 (57%), Gaps = 9/115 (7%)
Query: 22 DIPIARIRNFSIIAHVDHGKSTLADRLLEMTGTV-----LSSGSSQVLDSLQVEQERGIT 76
PIAR RN I AH+D GK+T +R+L TG + G++ +D ++ EQERGIT
Sbjct: 4 TTPIARYRNIGISAHIDAGKTTTTERILFYTGVNHKIGEVHDGAAT-MDWMEQEQERGIT 62
Query: 77 VK--AQTASLRYTSILDGEEYLLNLIDTPGHVDFSNEVTRSLAACQGVVLLIDAN 129
+ A TA + E + +N+IDTPGHVDF+ EV RS+ G V++ A
Sbjct: 63 ITSAATTAFWSGMA-KQYEPHRINIIDTPGHVDFTIEVERSMRVLDGAVMVYCAV 116
Score = 50.6 bits (122), Expect = 2e-07
Identities = 26/60 (43%), Positives = 36/60 (60%), Gaps = 6/60 (10%)
Query: 195 DIPIARIRNFSIIAHVDHGKSTLADRLLEMTGTV-----LSSGSSQVLDSLQVEQERGIT 249
PIAR RN I AH+D GK+T +R+L TG + G++ +D ++ EQERGIT
Sbjct: 4 TTPIARYRNIGISAHIDAGKTTTTERILFYTGVNHKIGEVHDGAAT-MDWMEQEQERGIT 62
>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein;
1.90A {Staphylococcus aureus}
Length = 693
Score = 90.2 bits (225), Expect = 8e-21
Identities = 43/114 (37%), Positives = 65/114 (57%), Gaps = 14/114 (12%)
Query: 22 DIPIARIRNFSIIAHVDHGKSTLADRLLEMTGTVLSSGS----SQVLDSLQVEQERGITV 77
+ + + RN I+AH+D GK+T +R+L TG + G + +D ++ EQ+RGIT+
Sbjct: 4 EFSLEKTRNIGIMAHIDAGKTTTTERILYYTGRIHKIGETHEGASQMDWMEQEQDRGITI 63
Query: 78 K--AQTASLRYTSILDGEEYLLNLIDTPGHVDFSNEVTRSLAACQGVVLLIDAN 129
A TA+ + +N+IDTPGHVDF+ EV RSL G V ++DA
Sbjct: 64 TSAATTAAWE--------GHRVNIIDTPGHVDFTVEVERSLRVLDGAVTVLDAQ 109
Score = 51.7 bits (125), Expect = 8e-08
Identities = 21/59 (35%), Positives = 35/59 (59%), Gaps = 4/59 (6%)
Query: 195 DIPIARIRNFSIIAHVDHGKSTLADRLLEMTGTVLSSGS----SQVLDSLQVEQERGIT 249
+ + + RN I+AH+D GK+T +R+L TG + G + +D ++ EQ+RGIT
Sbjct: 4 EFSLEKTRNIGIMAHIDAGKTTTTERILYYTGRIHKIGETHEGASQMDWMEQEQDRGIT 62
>1dar_A EF-G, elongation factor G; ribosomal translocase, translational
GTPase; HET: GDP; 2.40A {Thermus thermophilus} SCOP:
b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 PDB: 1elo_A 1ktv_A
2om7_L* 2wri_Y* 2wrk_Y* 2xsy_Y* 2xuy_Y* 2j7k_A* 2efg_A*
1jqm_B 1efg_A* 1fnm_A* 1pn6_A 2bm1_A* 2bm0_A* 2bv3_A*
3izp_E 1zn0_B 1jqs_C 2bcw_C ...
Length = 691
Score = 89.5 bits (223), Expect = 2e-20
Identities = 39/114 (34%), Positives = 65/114 (57%), Gaps = 14/114 (12%)
Query: 22 DIPIARIRNFSIIAHVDHGKSTLADRLLEMTGTVLSSGS----SQVLDSLQVEQERGITV 77
+ + R+RN I AH+D GK+T +R+L TG + G + +D ++ E+ERGIT+
Sbjct: 6 EYDLKRLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITI 65
Query: 78 K--AQTASLRYTSILDGEEYLLNLIDTPGHVDFSNEVTRSLAACQGVVLLIDAN 129
T + ++ +N+IDTPGHVDF+ EV RS+ G +++ D++
Sbjct: 66 TAAVTTCFWK--------DHRINIIDTPGHVDFTIEVERSMRVLDGAIVVFDSS 111
Score = 50.6 bits (122), Expect = 2e-07
Identities = 22/59 (37%), Positives = 35/59 (59%), Gaps = 4/59 (6%)
Query: 195 DIPIARIRNFSIIAHVDHGKSTLADRLLEMTGTVLSSGS----SQVLDSLQVEQERGIT 249
+ + R+RN I AH+D GK+T +R+L TG + G + +D ++ E+ERGIT
Sbjct: 6 EYDLKRLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGIT 64
>2h5e_A Peptide chain release factor RF-3; beta barrel, translation; HET:
GDP; 2.80A {Escherichia coli} PDB: 2o0f_A 3sfs_W*
3zvo_Y* 3uoq_W*
Length = 529
Score = 89.4 bits (222), Expect = 2e-20
Identities = 40/112 (35%), Positives = 66/112 (58%), Gaps = 14/112 (12%)
Query: 25 IARIRNFSIIAHVDHGKSTLADRLL------EMTGTVLSSGSSQ--VLDSLQVEQERGIT 76
+A+ R F+II+H D GK+T+ +++L + GTV GS+Q D +++E++RGI+
Sbjct: 10 VAKRRTFAIISHPDAGKTTITEKVLLFGQAIQTAGTVKGRGSNQHAKSDWMEMEKQRGIS 69
Query: 77 VKAQTASLRYTSILDGEEYLLNLIDTPGHVDFSNEVTRSLAACQGVVLLIDA 128
+ Y + L+NL+DTPGH DFS + R+L A +++IDA
Sbjct: 70 ITTSVMQFPY------HDCLVNLLDTPGHEDFSEDTYRTLTAVDCCLMVIDA 115
Score = 51.6 bits (124), Expect = 7e-08
Identities = 22/61 (36%), Positives = 40/61 (65%), Gaps = 8/61 (13%)
Query: 198 IARIRNFSIIAHVDHGKSTLADRLL------EMTGTVLSSGSSQ--VLDSLQVEQERGIT 249
+A+ R F+II+H D GK+T+ +++L + GTV GS+Q D +++E++RGI+
Sbjct: 10 VAKRRTFAIISHPDAGKTTITEKVLLFGQAIQTAGTVKGRGSNQHAKSDWMEMEKQRGIS 69
Query: 250 V 250
+
Sbjct: 70 I 70
>3tr5_A RF-3, peptide chain release factor 3; protein synthesis,
translation; HET: GDP; 2.11A {Coxiella burnetii}
Length = 528
Score = 89.0 bits (221), Expect = 2e-20
Identities = 40/112 (35%), Positives = 67/112 (59%), Gaps = 14/112 (12%)
Query: 25 IARIRNFSIIAHVDHGKSTLADRLL------EMTGTVLSSGSSQ--VLDSLQVEQERGIT 76
A R F+II+H D GK+TL ++LL ++ GT+ S +++ D +++E++RGI+
Sbjct: 10 TAMRRTFAIISHPDAGKTTLTEKLLLFGGAIQLAGTIKSRKAARHATSDWMELEKQRGIS 69
Query: 77 VKAQTASLRYTSILDGEEYLLNLIDTPGHVDFSNEVTRSLAACQGVVLLIDA 128
V Y ++YL+NL+DTPGH DF+ + R+L A +++IDA
Sbjct: 70 VTTSVMQFPY------KDYLINLLDTPGHADFTEDTYRTLTAVDSALMVIDA 115
Score = 51.6 bits (124), Expect = 9e-08
Identities = 22/61 (36%), Positives = 39/61 (63%), Gaps = 8/61 (13%)
Query: 198 IARIRNFSIIAHVDHGKSTLADRLL------EMTGTVLSSGSSQ--VLDSLQVEQERGIT 249
A R F+II+H D GK+TL ++LL ++ GT+ S +++ D +++E++RGI+
Sbjct: 10 TAMRRTFAIISHPDAGKTTLTEKLLLFGGAIQLAGTIKSRKAARHATSDWMELEKQRGIS 69
Query: 250 V 250
V
Sbjct: 70 V 70
>1jny_A EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-1; GTPase,
alpha/beta structure, protein biosynthesis, translation;
HET: GDP; 1.80A {Sulfolobus solfataricus} SCOP: b.43.3.1
b.44.1.1 c.37.1.8 PDB: 1skq_A* 3agj_A*
Length = 435
Score = 68.1 bits (167), Expect = 2e-13
Identities = 40/125 (32%), Positives = 57/125 (45%), Gaps = 37/125 (29%)
Query: 30 NFSIIAHVDHGKSTLADRLLEMTGTV--------------LSSGS---SQVLDSLQVEQE 72
N +I HVDHGKSTL RLL G + L S + +LD L+ E+E
Sbjct: 8 NLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERE 67
Query: 73 RGITV-----KAQTASLRYTSILDGEEYLLNLIDTPGHVDF-SNEVT-RSLAACQGVVLL 125
RG+T+ + +T +T +ID PGH DF N +T S A +L+
Sbjct: 68 RGVTINLTFMRFETKKYFFT-----------IIDAPGHRDFVKNMITGASQADA--AILV 114
Query: 126 IDANQ 130
+ A +
Sbjct: 115 VSAKK 119
Score = 51.9 bits (125), Expect = 6e-08
Identities = 25/65 (38%), Positives = 33/65 (50%), Gaps = 17/65 (26%)
Query: 203 NFSIIAHVDHGKSTLADRLLEMTGTV--------------LSSGS---SQVLDSLQVEQE 245
N +I HVDHGKSTL RLL G + L S + +LD L+ E+E
Sbjct: 8 NLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERE 67
Query: 246 RGITV 250
RG+T+
Sbjct: 68 RGVTI 72
>1f60_A Elongation factor EEF1A; protein-protein complex, translation;
1.67A {Saccharomyces cerevisiae} SCOP: b.43.3.1 b.44.1.1
c.37.1.8 PDB: 1g7c_A* 1ije_A* 1ijf_A* 2b7b_A* 2b7c_A
Length = 458
Score = 67.8 bits (166), Expect = 4e-13
Identities = 37/141 (26%), Positives = 56/141 (39%), Gaps = 33/141 (23%)
Query: 30 NFSIIAHVDHGKSTLADRLLEMTGTV--------------LSSGS---SQVLDSLQVEQE 72
N +I HVD GKST L+ G + L GS + VLD L+ E+E
Sbjct: 9 NVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERE 68
Query: 73 RGITV-----KAQTASLRYTSILDGEEYLLNLIDTPGHVDFSNEVTRSLAACQGVVLLID 127
RGIT+ K +T + T +ID PGH DF + + +L+I
Sbjct: 69 RGITIDIALWKFETPKYQVT-----------VIDAPGHRDFIKNMITGTSQADCAILIIA 117
Query: 128 ANQVDLKNANPEACEEQLQTL 148
+ + + + + L
Sbjct: 118 GGVGEFEAGISKDGQTREHAL 138
Score = 52.0 bits (125), Expect = 5e-08
Identities = 24/65 (36%), Positives = 31/65 (47%), Gaps = 17/65 (26%)
Query: 203 NFSIIAHVDHGKSTLADRLLEMTGTV--------------LSSGS---SQVLDSLQVEQE 245
N +I HVD GKST L+ G + L GS + VLD L+ E+E
Sbjct: 9 NVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERE 68
Query: 246 RGITV 250
RGIT+
Sbjct: 69 RGITI 73
>1r5b_A Eukaryotic peptide chain release factor GTP-bindi subunit;
translation termination, peptide release, GTPase,
translatio; 2.35A {Schizosaccharomyces pombe} SCOP:
b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1r5n_A* 1r5o_A* 3e20_A
Length = 467
Score = 67.4 bits (165), Expect = 4e-13
Identities = 38/125 (30%), Positives = 51/125 (40%), Gaps = 37/125 (29%)
Query: 30 NFSIIAHVDHGKSTLADRLLEMTGTV--------------LSSGS---SQVLDSLQVEQE 72
N I HVD GKSTL +L +TG V S S LDS E+E
Sbjct: 45 NIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEERE 104
Query: 73 RGITV-----KAQTASLRYTSILDGEEYLLNLIDTPGHVDF-SNEVT-RSLAACQGVVLL 125
+G TV +T R++ L+D PGH + +N + S A VL+
Sbjct: 105 KGKTVEVGRAYFETEHRRFS-----------LLDAPGHKGYVTNMINGASQADI--GVLV 151
Query: 126 IDANQ 130
I A +
Sbjct: 152 ISARR 156
Score = 52.4 bits (126), Expect = 4e-08
Identities = 24/65 (36%), Positives = 28/65 (43%), Gaps = 17/65 (26%)
Query: 203 NFSIIAHVDHGKSTLADRLLEMTGTV--------------LSSGS---SQVLDSLQVEQE 245
N I HVD GKSTL +L +TG V S S LDS E+E
Sbjct: 45 NIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEERE 104
Query: 246 RGITV 250
+G TV
Sbjct: 105 KGKTV 109
>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein
complex, translation regulation; 2.74A
{Schizosaccharomyces pombe}
Length = 592
Score = 67.1 bits (164), Expect = 5e-13
Identities = 31/125 (24%), Positives = 52/125 (41%), Gaps = 37/125 (29%)
Query: 30 NFSIIAHVDHGKSTLADRLLEMTGTV--------------LSSGS---SQVLDSLQVEQE 72
+ + HVD GKST+ R++ G + GS + +LD+ + E+
Sbjct: 179 HLVVTGHVDSGKSTMLGRIMFELGEINSRSMQKLHNEAANSGKGSFSYAWLLDTTEEERA 238
Query: 73 RGITV-----KAQTASLRYTSILDGEEYLLNLIDTPGHVDF-SNEVT-RSLAACQGVVLL 125
RG+T+ ++ Y + D PGH DF S + S A VL+
Sbjct: 239 RGVTMDVASTTFESDKKIYE-----------IGDAPGHRDFISGMIAGASSADF--AVLV 285
Query: 126 IDANQ 130
+D++Q
Sbjct: 286 VDSSQ 290
Score = 53.2 bits (128), Expect = 3e-08
Identities = 17/65 (26%), Positives = 30/65 (46%), Gaps = 17/65 (26%)
Query: 203 NFSIIAHVDHGKSTLADRLLEMTGTV--------------LSSGS---SQVLDSLQVEQE 245
+ + HVD GKST+ R++ G + GS + +LD+ + E+
Sbjct: 179 HLVVTGHVDSGKSTMLGRIMFELGEINSRSMQKLHNEAANSGKGSFSYAWLLDTTEEERA 238
Query: 246 RGITV 250
RG+T+
Sbjct: 239 RGVTM 243
>3p26_A Elongation factor 1 alpha-like protein; GTP/GDP binding domain,
beta-barrel, translational GTPase, D structural
genomics; 2.50A {Saccharomyces cerevisiae} PDB: 3p27_A*
Length = 483
Score = 66.9 bits (164), Expect = 6e-13
Identities = 34/125 (27%), Positives = 50/125 (40%), Gaps = 37/125 (29%)
Query: 30 NFSIIAHVDHGKSTLADRLLEMTGTV--------------LSSGS---SQVLDSLQVEQE 72
+F ++ HVD GKSTL RLL V + S + ++D E+E
Sbjct: 35 SFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERE 94
Query: 73 RGITV-----KAQTASLRYTSILDGEEYLLNLIDTPGHVDF-SNEVT-RSLAACQGVVLL 125
RG+TV T +T ++D PGH DF N + S A +L
Sbjct: 95 RGVTVSICTSHFSTHRANFT-----------IVDAPGHRDFVPNAIMGISQADM--AILC 141
Query: 126 IDANQ 130
+D +
Sbjct: 142 VDCST 146
Score = 53.0 bits (128), Expect = 3e-08
Identities = 21/65 (32%), Positives = 30/65 (46%), Gaps = 17/65 (26%)
Query: 203 NFSIIAHVDHGKSTLADRLLEMTGTV--------------LSSGS---SQVLDSLQVEQE 245
+F ++ HVD GKSTL RLL V + S + ++D E+E
Sbjct: 35 SFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERE 94
Query: 246 RGITV 250
RG+TV
Sbjct: 95 RGVTV 99
>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay,
ribosomal protein,hydrolase; 9.50A {Saccharomyces
cerevisiae}
Length = 611
Score = 65.9 bits (161), Expect = 2e-12
Identities = 29/101 (28%), Positives = 41/101 (40%), Gaps = 33/101 (32%)
Query: 30 NFSIIAHVDHGKSTLADRLLEMTGTV--------------LSSGS---SQVLDSLQVEQE 72
+F ++ HVD GKSTL RLL V + S + ++D E+E
Sbjct: 169 SFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERE 228
Query: 73 RGITV-----KAQTASLRYTSILDGEEYLLNLIDTPGHVDF 108
RG+TV T +T ++D PGH DF
Sbjct: 229 RGVTVSICTSHFSTHRANFT-----------IVDAPGHRDF 258
Score = 52.8 bits (127), Expect = 4e-08
Identities = 21/65 (32%), Positives = 30/65 (46%), Gaps = 17/65 (26%)
Query: 203 NFSIIAHVDHGKSTLADRLLEMTGTV--------------LSSGS---SQVLDSLQVEQE 245
+F ++ HVD GKSTL RLL V + S + ++D E+E
Sbjct: 169 SFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERE 228
Query: 246 RGITV 250
RG+TV
Sbjct: 229 RGVTV 233
>1zun_B Sulfate adenylate transferase, subunit 1/adenylylsulfate kinase;
beta barrel, switch domain, heterodimer, pyrophosphate,
G protein; HET: GDP AGS; 2.70A {Pseudomonas syringae PV}
SCOP: b.43.3.1 b.44.1.1 c.37.1.8
Length = 434
Score = 63.1 bits (154), Expect = 1e-11
Identities = 29/120 (24%), Positives = 51/120 (42%), Gaps = 25/120 (20%)
Query: 30 NFSIIAHVDHGKSTLADRLLEMTGTVLSSGSSQV-------------------LDSLQVE 70
F +VD GKSTL RLL + + + +D LQ E
Sbjct: 26 RFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAE 85
Query: 71 QERGITVKAQTASLRYTSILDGEEYLLNLIDTPGHVDFSNEVTRSLAACQGVVLLIDANQ 130
+E+GIT+ A +++ +++ + DTPGH ++ + + C ++L+DA
Sbjct: 86 REQGITI--DVAYRYFST--AKRKFI--IADTPGHEQYTRNMATGASTCDLAIILVDARY 139
Score = 43.4 bits (103), Expect = 3e-05
Identities = 23/89 (25%), Positives = 33/89 (37%), Gaps = 20/89 (22%)
Query: 181 DGLAKPDSKATPYEDIPIARIRNFSIIAHVDHGKSTLADRLLEMTGTVLSSGSSQV---- 236
L D A + +R F +VD GKSTL RLL + + +
Sbjct: 5 SDLISEDILAYLGQHERKEMLR-FLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDS 63
Query: 237 ---------------LDSLQVEQERGITV 250
+D LQ E+E+GIT+
Sbjct: 64 KKSGTTGDDVDLALLVDGLQAEREQGITI 92
>1wb1_A Translation elongation factor SELB; selenocysteine, protein
synthesis, selenium, ribosome; HET: GDP DXC; 3.0A
{Methanococcus maripaludis} SCOP: b.43.3.1 b.43.3.1
b.44.1.1 c.37.1.8 PDB: 1wb2_A* 1wb3_A*
Length = 482
Score = 59.0 bits (143), Expect = 3e-10
Identities = 32/107 (29%), Positives = 45/107 (42%), Gaps = 29/107 (27%)
Query: 30 NFSIIAHVDHGKSTLADRLLEMTGTVLSSGSSQVLDSLQVEQERGIT-----VKAQTASL 84
N I H+DHGK+TL+ L T S+ D L Q+RGIT + +
Sbjct: 21 NLGIFGHIDHGKTTLSKVL---TEIA----STSAHDKLPESQKRGITIDIGFSAFKLENY 73
Query: 85 RYTSILDGEEYLLNLIDTPGHVDF-SNEVTRSLAACQ--GVVLLIDA 128
R T L+D PGH D V+ AA ++++DA
Sbjct: 74 RIT-----------LVDAPGHADLIRAVVS---AADIIDLALIVVDA 106
Score = 43.9 bits (104), Expect = 3e-05
Identities = 19/47 (40%), Positives = 24/47 (51%), Gaps = 7/47 (14%)
Query: 203 NFSIIAHVDHGKSTLADRLLEMTGTVLSSGSSQVLDSLQVEQERGIT 249
N I H+DHGK+TL+ L T S+ D L Q+RGIT
Sbjct: 21 NLGIFGHIDHGKTTLSKVL---TEIA----STSAHDKLPESQKRGIT 60
>1iml_A CRIP, cysteine rich intestinal protein; metal-binding protein, LIM
domain protein; NMR {Rattus rattus} SCOP: g.39.1.3
g.39.1.3
Length = 76
Score = 43.9 bits (104), Expect = 1e-06
Identities = 10/43 (23%), Positives = 21/43 (48%), Gaps = 4/43 (9%)
Query: 140 ACEEQLQTLFNIDKKSVL-RIWHRRCFSCADCHRSLDSTNLND 181
C+ + ++ ++ + L + WHR C C C ++L S +
Sbjct: 5 KCD---KEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAE 44
>2cu8_A Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein, zinc-binding,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
g.39.1.3 g.39.1.3
Length = 76
Score = 43.5 bits (103), Expect = 2e-06
Identities = 11/43 (25%), Positives = 21/43 (48%), Gaps = 4/43 (9%)
Query: 140 ACEEQLQTLFNIDKKSVL-RIWHRRCFSCADCHRSLDSTNLND 181
C++ T++ +K S L + WH+ C C C ++L +
Sbjct: 14 KCDK---TVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAE 53
>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 = 46.8 bits (110), Expect = 4e-06
Identities = 41/252 (16%), Positives = 74/252 (29%), Gaps = 86/252 (34%)
Query: 40 GKSTLADRLLEMTGTVLSSGSSQVLDSLQVEQERGITVKAQTASLRYTSILDGEEYLLNL 99
GK+ +A V S +V+ + +D + + LNL
Sbjct: 162 GKTWVA---------------LDVCLSYKVQCK-----------------MDFKIFWLNL 189
Query: 100 IDTPGHVDFSNEVTRSLAACQGVVLLIDANQVDLKNA------NPEACEEQLQTLFNID- 152
+ + V L Q ++ ID N + + + +L+ L
Sbjct: 190 ----KNCNSPETVLEML---QKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKP 242
Query: 153 -KKS--VLR-IWHRRC-----FSC-----------AD-------CHRSLDSTNLNDGLAK 185
+ VL + + + SC D H SLD + + L
Sbjct: 243 YENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLD--HHSMTLTP 300
Query: 186 PDSKA-------TPYEDIPI-ARIRN---FSIIAHVDHGKSTLADRLLEMTGTVLSSGSS 234
+ K+ +D+P N SIIA D + L++
Sbjct: 301 DEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIE 360
Query: 235 QVLDSLQVEQER 246
L+ L+ + R
Sbjct: 361 SSLNVLEPAEYR 372
>1a7i_A QCRP2 (LIM1); LIM domain containing proteins, metal-binding
protein, zinc finger; NMR {Coturnix japonica} SCOP:
g.39.1.3 g.39.1.3 PDB: 2o10_A
Length = 81
Score = 42.8 bits (101), Expect = 5e-06
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 158 RIWHRRCFSCADCHRSLDSTNLND 181
R +HR CF C C ++LDST +
Sbjct: 28 RSFHRCCFLCMVCRKNLDSTTVAI 51
>2d8y_A Eplin protein; LIM domain, epithelial protein LOST in neoplasm,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
g.39.1.3 g.39.1.3
Length = 91
Score = 41.8 bits (98), Expect = 1e-05
Identities = 8/43 (18%), Positives = 20/43 (46%), Gaps = 4/43 (9%)
Query: 140 ACEEQLQTLFNIDKKSVL-RIWHRRCFSCADCHRSLDSTNLND 181
C+ +T++ +++ +++H CF C+ C+ L
Sbjct: 20 ECQ---KTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYAS 59
>1b8t_A Protein (CRP1); LIM domain, muscle differentiation, contractIle;
NMR {Gallus gallus} SCOP: g.39.1.3 g.39.1.3 g.39.1.3
g.39.1.3 PDB: 1ibi_A 1qli_A 1cxx_A 1ctl_A 2o13_A
Length = 192
Score = 43.9 bits (103), Expect = 1e-05
Identities = 11/21 (52%), Positives = 15/21 (71%)
Query: 158 RIWHRRCFSCADCHRSLDSTN 178
+ WH+ CF CA C +SL+ST
Sbjct: 136 KSWHKSCFRCAKCGKSLESTT 156
Score = 41.2 bits (96), Expect = 1e-04
Identities = 10/41 (24%), Positives = 20/41 (48%), Gaps = 4/41 (9%)
Query: 139 EACEEQLQTLFNIDKKSVL-RIWHRRCFSCADCHRSLDSTN 178
C++ ++ ++ +H+ CF C C ++LDST
Sbjct: 11 GVCQK---AVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTT 48
>1g7s_A Translation initiation factor IF2/EIF5B; translational GTPase; HET:
GDP; 2.00A {Methanothermobacterthermautotrophicus} SCOP:
b.43.3.1 b.43.3.1 c.20.1.1 c.37.1.8 PDB: 1g7r_A* 1g7t_A*
Length = 594
Score = 43.8 bits (104), Expect = 3e-05
Identities = 28/107 (26%), Positives = 38/107 (35%), Gaps = 28/107 (26%)
Query: 36 HVDHGKSTLADRLLEMTGTVLSSGSSQVLDSLQVEQE-RGIT------------VKAQTA 82
HVDHGK+TL D + S V +E GIT ++
Sbjct: 13 HVDHGKTTLLDHIR----------GSAV-----ASREAGGITQHIGATEIPMDVIEGICG 57
Query: 83 SLRYTSILDGEEYLLNLIDTPGHVDFSNEVTRSLAACQGVVLLIDAN 129
+ L IDTPGH F+ R A +L++D N
Sbjct: 58 DFLKKFSIRETLPGLFFIDTPGHEAFTTLRKRGGALADLAILIVDIN 104
Score = 28.8 bits (65), Expect = 1.8
Identities = 9/13 (69%), Positives = 11/13 (84%)
Query: 209 HVDHGKSTLADRL 221
HVDHGK+TL D +
Sbjct: 13 HVDHGKTTLLDHI 25
>2co8_A NEDD9 interacting protein with calponin homology and LIM domains;
zinc finger protein, structural genomics, NPPSFA; NMR
{Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Length = 82
Score = 40.3 bits (94), Expect = 3e-05
Identities = 7/23 (30%), Positives = 9/23 (39%)
Query: 158 RIWHRRCFSCADCHRSLDSTNLN 180
+HR CF C C +L
Sbjct: 36 HFFHRSCFRCHTCEATLWPGGYE 58
>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 = 43.5 bits (102), Expect = 5e-05
Identities = 42/284 (14%), Positives = 82/284 (28%), Gaps = 86/284 (30%)
Query: 5 FYSTEAAKPDSKATPYEDI-PI---ARIRNFSIIAH-VDHGKSTLADRLLEMTGTVLSSG 59
F + A E P + + ++ V+ K D++L L+
Sbjct: 37 FNKILPEPTEGFAADDEPTTPAELVGKFLGY--VSSLVEPSKVGQFDQVLN---LCLTEF 91
Query: 60 SSQVLDSLQVEQERGITVKAQTASLRYTSILDGEEYLLNLIDTPGHVDFSNEVTRS-LAA 118
+ L G + A A L L + + + E+ ++ + A
Sbjct: 92 ENCYL--------EGNDIHALAAKL--------------LQENDTTLVKTKELIKNYITA 129
Query: 119 CQGVV---------LLIDANQVDLKNA----------NPEACEEQLQTLFNIDK---KSV 156
L A V NA N + E+L+ L+ +
Sbjct: 130 RIMAKRPFDKKSNSALFRA--VGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDL 187
Query: 157 LRIWHRRCFSCADCHRSLDST-----NLNDGLAKPDSKATPYED----IPIA-------R 200
++ + N+ + L P + TP +D IPI+ +
Sbjct: 188 IKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSN--TPDKDYLLSIPISCPLIGVIQ 245
Query: 201 IRNFSIIAHVDHGKST--LADRLLEMTG--------TVLSSGSS 234
+ ++ + A + G + L L TG ++ S
Sbjct: 246 LAHYVVTAKL-LGFTPGELRSYLKGATGHSQGLVTAVAIAETDS 288
Score = 39.3 bits (91), Expect = 0.001
Identities = 45/312 (14%), Positives = 93/312 (29%), Gaps = 135/312 (43%)
Query: 20 YEDIPIAR-IRN-----------FSIIAHVDHGKSTLADRLLEMTGTVLSSGSSQVLDSL 67
Y+ A+ + N FSI+ V + L T+ G
Sbjct: 1636 YKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNL---------TIHFGG-------- 1678
Query: 68 QVEQERGITVKAQTASLRYTSILDGEEYLLNLIDTPGHVDFSNEVTRSLAAC--QGVVLL 125
E+G ++ +++ + +I+DG+ + E+ + +
Sbjct: 1679 ----EKGKRIRENYSAMIFETIVDGKLKTEKIFK---------EINEHSTSYTFRS---- 1721
Query: 126 IDANQVDL-KNANP------EACEEQLQTLFNIDKKSVLRIWHRRCFSCADCHRSLDSTN 178
+ + + P +A E L++ I + A H SL
Sbjct: 1722 -EKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATF----------AG-H-SL---- 1764
Query: 179 LNDG----LAKPDSKAT--PYED-IPIARIR----------------NFSIIAHVDHGK- 214
G LA S A E + + R N+ +IA ++ G+
Sbjct: 1765 ---GEYAALA---SLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIA-INPGRV 1817
Query: 215 ---------STLADRLLEMTGTVLS-------------SGS-------SQVLDSLQVEQE 245
+ +R+ + TG ++ +G + VL+ +++
Sbjct: 1818 AASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKL--- 1874
Query: 246 RGITVKAQTASL 257
+ I + SL
Sbjct: 1875 QKIDIIELQKSL 1886
>1wyh_A SLIM 2, skeletal muscle LIM-protein 2; structural genomics, riken
structural genomics/proteomics initiative, RSGI, NPPSFA;
NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Length = 72
Score = 38.5 bits (90), Expect = 1e-04
Identities = 8/21 (38%), Positives = 12/21 (57%)
Query: 158 RIWHRRCFSCADCHRSLDSTN 178
+ WH CF C+ C + L S +
Sbjct: 27 QTWHEHCFLCSGCEQPLGSRS 47
>1s0u_A EIF-2-gamma, translation initiation factor 2 gamma subunit; GTPase,
EF-1A, tRNA; 2.40A {Methanocaldococcus jannaschii} SCOP:
b.43.3.1 b.44.1.1 c.37.1.8
Length = 408
Score = 41.5 bits (98), Expect = 1e-04
Identities = 27/121 (22%), Positives = 46/121 (38%), Gaps = 34/121 (28%)
Query: 30 NFSIIAHVDHGKSTLADRLLEMTGTVLSSGSSQVLDSLQVEQERGITVK-----AQTA-- 82
N ++ HVDHGK++L L TG V + S+ E RGI+++ +
Sbjct: 10 NIGMVGHVDHGKTSLTKAL---TG-VWTDRHSE-------ELRRGISIRLGYADCEIRKC 58
Query: 83 ----SLRYTSILDGEEYLLNL------IDTPGHVDF-SNEVTRSLAACQ--GVVLLIDAN 129
+ +D+PGH + ++ A G +L+I AN
Sbjct: 59 PQCGTYTTKPRCPNCLAETEFLRRVSFVDSPGHETLMATMLS---GASLMDGAILVIAAN 115
Query: 130 Q 130
+
Sbjct: 116 E 116
Score = 39.2 bits (92), Expect = 8e-04
Identities = 17/49 (34%), Positives = 26/49 (53%), Gaps = 11/49 (22%)
Query: 203 NFSIIAHVDHGKSTLADRLLEMTGTVLSSGSSQVLDSLQVEQERGITVK 251
N ++ HVDHGK++L L TG V + S+ E RGI+++
Sbjct: 10 NIGMVGHVDHGKTSLTKAL---TG-VWTDRHSE-------ELRRGISIR 47
>1d2e_A Elongation factor TU (EF-TU); G-protein, beta-barrel, RNA binding
protein; HET: GDP; 1.94A {Bos taurus} SCOP: b.43.3.1
b.44.1.1 c.37.1.8 PDB: 1xb2_A* 2hcj_A* 2hdn_A*
Length = 397
Score = 41.4 bits (98), Expect = 1e-04
Identities = 26/90 (28%), Positives = 38/90 (42%), Gaps = 26/90 (28%)
Query: 30 NFSIIAHVDHGKSTLADRLLEMTGTVLSS-GSSQVLDSLQV-----EQERGIT-----VK 78
N I HVDHGK+TL + +L+ G ++ ++ E+ RGIT V+
Sbjct: 5 NVGTIGHVDHGKTTLTAAIT----KILAEGGGAKFKKYEEIDNAPEERARGITINAAHVE 60
Query: 79 AQTASLRYTSILDGEEYLLNLIDTPGHVDF 108
TA+ Y D PGH D+
Sbjct: 61 YSTAARHYAH-----------TDCPGHADY 79
Score = 36.0 bits (84), Expect = 0.009
Identities = 17/54 (31%), Positives = 27/54 (50%), Gaps = 10/54 (18%)
Query: 203 NFSIIAHVDHGKSTLADRLLEMTGTVLSS-GSSQVLDSLQV-----EQERGITV 250
N I HVDHGK+TL + +L+ G ++ ++ E+ RGIT+
Sbjct: 5 NVGTIGHVDHGKTTLTAAIT----KILAEGGGAKFKKYEEIDNAPEERARGITI 54
>3avx_A Elongation factor TS, elongation factor TU, linke replicase; RNA
polymerase, translation, transferase-RNA complex; HET:
GH3; 2.41A {Escherichia coli O157} PDB: 3agq_A 3agp_A*
3avu_A 3avv_A 3avt_A* 3avw_A* 3avy_A* 3mmp_A* 3mmp_G*
1efu_B
Length = 1289
Score = 41.8 bits (98), Expect = 2e-04
Identities = 27/85 (31%), Positives = 38/85 (44%), Gaps = 16/85 (18%)
Query: 30 NFSIIAHVDHGKSTLADRLLEMTGTVLSS-GSSQVLDSLQV-----EQERGITVKAQTAS 83
N I HVDHGK+TL + TVL+ Q+ E+ RGIT+ T+
Sbjct: 298 NVGTIGHVDHGKTTLTAAIT----TVLAKTYGGAARAFDQIDNAPEEKARGITI--NTSH 351
Query: 84 LRYTSILDGEEYLLNLIDTPGHVDF 108
+ Y + Y +D PGH D+
Sbjct: 352 VEYDT--PTRHY--AHVDCPGHADY 372
Score = 36.5 bits (84), Expect = 0.008
Identities = 19/54 (35%), Positives = 25/54 (46%), Gaps = 10/54 (18%)
Query: 203 NFSIIAHVDHGKSTLADRLLEMTGTVLSS-GSSQVLDSLQV-----EQERGITV 250
N I HVDHGK+TL + TVL+ Q+ E+ RGIT+
Sbjct: 298 NVGTIGHVDHGKTTLTAAIT----TVLAKTYGGAARAFDQIDNAPEEKARGITI 347
>2ehe_A Four and A half LIM domains 3; FHL-3, skeletal muscle LIM- protein
2, SLIM 2, FHL3, SLIM2, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 82
Score = 38.6 bits (90), Expect = 2e-04
Identities = 9/20 (45%), Positives = 10/20 (50%)
Query: 158 RIWHRRCFSCADCHRSLDST 177
R +H CF C C RSL
Sbjct: 37 RHFHEGCFRCCRCQRSLADE 56
>1x63_A Skeletal muscle LIM-protein 1; LIM domain, four and A half LIM
domains protein 1, structural genomics, NPPSFA; NMR
{Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Length = 82
Score = 38.5 bits (90), Expect = 2e-04
Identities = 6/21 (28%), Positives = 15/21 (71%)
Query: 158 RIWHRRCFSCADCHRSLDSTN 178
+WH+ CF+C++C + + + +
Sbjct: 37 TVWHKDCFTCSNCKQVIGTGS 57
>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine,
structural genomics, NPPSFA; HET: CIT; 1.70A
{Methanosarcina mazei}
Length = 370
Score = 41.0 bits (97), Expect = 2e-04
Identities = 12/105 (11%), Positives = 21/105 (20%), Gaps = 29/105 (27%)
Query: 36 HVDHGKSTLADRLLEMTGTVLSSGSSQVL----DSLQVEQERGIT-----VKAQTASLRY 86
H H S L R + + ++G +
Sbjct: 6 HHHHHSSGLVPRG---SHMANVAIIGTEKSGRTSLAANLGKKGTSSDITMYNNDKEGRNM 62
Query: 87 TSILDGEEYLLNLIDTPGHVDF-SNEVTRSLAACQ--GVVLLIDA 128
+D + + +T A VL I
Sbjct: 63 V-----------FVDAHSYPKTLKSLIT---ALNISDIAVLCIPP 93
Score = 31.4 bits (72), Expect = 0.26
Identities = 6/45 (13%), Positives = 11/45 (24%), Gaps = 7/45 (15%)
Query: 209 HVDHGKSTLADRLLEMTGTVLSSGSSQVL----DSLQVEQERGIT 249
H H S L R + + ++G +
Sbjct: 6 HHHHHSSGLVPRG---SHMANVAIIGTEKSGRTSLAANLGKKGTS 47
>1kk1_A EIF2gamma; initiation of translation; HET: GNP; 1.80A {Pyrococcus
abyssi} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1kjz_A*
1kk2_A* 1kk3_A* 1kk0_A* 2d74_A 2dcu_A*
Length = 410
Score = 41.1 bits (97), Expect = 2e-04
Identities = 32/121 (26%), Positives = 47/121 (38%), Gaps = 34/121 (28%)
Query: 30 NFSIIAHVDHGKSTLADRLLEMTGTVLSSGSSQVLDSLQVEQERGITVK-----AQTA-- 82
N ++ HVDHGK+TL L TG V + S+ E RGIT+K A+
Sbjct: 12 NIGMVGHVDHGKTTLTKAL---TG-VWTDTHSE-------ELRRGITIKIGFADAEIRRC 60
Query: 83 ----SLRYTSILDGEEYLLNL------IDTPGHVDF-SNEVTRSLAACQ--GVVLLIDAN 129
+ + + ID PGH + + A G +L+I AN
Sbjct: 61 PNCGRYSTSPVCPYCGHETEFVRRVSFIDAPGHEALMTTMLA---GASLMDGAILVIAAN 117
Query: 130 Q 130
+
Sbjct: 118 E 118
Score = 39.1 bits (92), Expect = 8e-04
Identities = 20/49 (40%), Positives = 26/49 (53%), Gaps = 11/49 (22%)
Query: 203 NFSIIAHVDHGKSTLADRLLEMTGTVLSSGSSQVLDSLQVEQERGITVK 251
N ++ HVDHGK+TL L TG V + S+ E RGIT+K
Sbjct: 12 NIGMVGHVDHGKTTLTKAL---TG-VWTDTHSE-------ELRRGITIK 49
>2c78_A Elongation factor TU-A; hydrolase, GTPase, translation elongation
factor, protein synthesis, antibiotic, GTP-binding,
nucleotide-binding; HET: GNP PUL; 1.4A {Thermus
thermophilus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB:
2y0u_Z* 2y0w_Z* 2y0y_Z* 2y10_Z* 2y12_Z* 2y14_Z* 2y16_Z*
2y18_Z* 2wrn_Z* 2wrq_Z* 2c77_A* 1aip_A 1exm_A* 1ha3_A*
2xqd_Z* 3fic_Z* 4abr_Z* 1b23_P* 1ob5_A* 1ttt_A* ...
Length = 405
Score = 41.0 bits (97), Expect = 2e-04
Identities = 28/86 (32%), Positives = 41/86 (47%), Gaps = 17/86 (19%)
Query: 30 NFSIIAHVDHGKSTLADRLLEMTGTVLSS--GSSQVLDSLQV-----EQERGITVKAQTA 82
N I HVDHGK+TL L V ++ + +V D + E+ RGIT+ TA
Sbjct: 13 NVGTIGHVDHGKTTLTAALT----YVAAAENPNVEVKDYGDIDKAPEERARGITI--NTA 66
Query: 83 SLRYTSILDGEEYLLNLIDTPGHVDF 108
+ Y + Y + +D PGH D+
Sbjct: 67 HVEYET--AKRHY--SHVDCPGHADY 88
Score = 36.0 bits (84), Expect = 0.009
Identities = 19/55 (34%), Positives = 27/55 (49%), Gaps = 11/55 (20%)
Query: 203 NFSIIAHVDHGKSTLADRLLEMTGTVLSS--GSSQVLDSLQV-----EQERGITV 250
N I HVDHGK+TL L V ++ + +V D + E+ RGIT+
Sbjct: 13 NVGTIGHVDHGKTTLTAALT----YVAAAENPNVEVKDYGDIDKAPEERARGITI 63
>1x4k_A Skeletal muscle LIM-protein 3; LIM domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3
g.39.1.3
Length = 72
Score = 37.8 bits (88), Expect = 3e-04
Identities = 6/21 (28%), Positives = 10/21 (47%)
Query: 158 RIWHRRCFSCADCHRSLDSTN 178
WH CF C C + + + +
Sbjct: 27 SSWHETCFICHRCQQPIGTKS 47
>1x68_A FHL5 protein; four-and-A-half LIM protein 5, zinc finger domain, AN
actin- interacting protein, structural genomics, NPPSFA;
NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Length = 76
Score = 37.5 bits (87), Expect = 3e-04
Identities = 8/17 (47%), Positives = 9/17 (52%)
Query: 158 RIWHRRCFSCADCHRSL 174
WH CF+C C SL
Sbjct: 29 SQWHSECFNCGKCSVSL 45
>2egq_A FHL1 protein; LIM domain, four and A half LIM domains protein 1,
skeletal muscle LIM- protein 1, SLIM 1, structural
genomics NPPSFA; NMR {Homo sapiens}
Length = 77
Score = 37.5 bits (87), Expect = 3e-04
Identities = 7/17 (41%), Positives = 9/17 (52%)
Query: 158 RIWHRRCFSCADCHRSL 174
+ WH CF C C +L
Sbjct: 40 QSWHDYCFHCKKCSVNL 56
>2cur_A Skeletal muscle LIM-protein 1; four and A half LIM domains protein
1, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
g.39.1.3 g.39.1.3
Length = 69
Score = 37.4 bits (87), Expect = 3e-04
Identities = 7/20 (35%), Positives = 9/20 (45%)
Query: 158 RIWHRRCFSCADCHRSLDST 177
+ WH CF C C + L
Sbjct: 25 QPWHADCFVCVTCSKKLAGQ 44
>2dj7_A Actin-binding LIM protein 3; LIM domain, Zn binding protein,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
g.39.1.3 g.39.1.3
Length = 80
Score = 37.4 bits (87), Expect = 4e-04
Identities = 7/20 (35%), Positives = 8/20 (40%)
Query: 158 RIWHRRCFSCADCHRSLDST 177
+ WH CF C C L
Sbjct: 36 KQWHVSCFKCQTCSVILTGE 55
>1x62_A C-terminal LIM domain protein 1; PDZ and LIM domain protein 1, LIM
domain protein CLP-36, contractIle protein, structural
genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3
g.39.1.3
Length = 79
Score = 37.0 bits (86), Expect = 4e-04
Identities = 7/17 (41%), Positives = 9/17 (52%)
Query: 158 RIWHRRCFSCADCHRSL 174
R H C+ C DC +L
Sbjct: 35 RHRHPECYVCTDCGTNL 51
>2rgt_A Fusion of LIM/homeobox protein LHX3, linker, INSU enhancer protein
ISL-1; protein-protein complex, LIM domain, Zn finger,
activator, D binding; 2.05A {Mus musculus} PDB: 3mmk_A
Length = 169
Score = 39.1 bits (91), Expect = 5e-04
Identities = 9/20 (45%), Positives = 11/20 (55%)
Query: 158 RIWHRRCFSCADCHRSLDST 177
R WH +C C+DCH L
Sbjct: 27 RHWHSKCLKCSDCHVPLAER 46
Score = 33.7 bits (77), Expect = 0.026
Identities = 7/17 (41%), Positives = 10/17 (58%)
Query: 158 RIWHRRCFSCADCHRSL 174
++H CF+C C R L
Sbjct: 87 FVYHLHCFACVVCKRQL 103
>1x4l_A Skeletal muscle LIM-protein 3; LIM domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3
g.39.1.3
Length = 72
Score = 36.7 bits (85), Expect = 5e-04
Identities = 9/17 (52%), Positives = 10/17 (58%)
Query: 158 RIWHRRCFSCADCHRSL 174
R WH CF+C C SL
Sbjct: 29 RQWHNDCFNCKKCSLSL 45
>2d8z_A Four and A half LIM domains 2; skeletal muscle LIM-protein 3,
LIM-domain protein DRAL, structural genomics, NPPSFA;
NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Length = 70
Score = 36.9 bits (86), Expect = 5e-04
Identities = 7/20 (35%), Positives = 10/20 (50%)
Query: 158 RIWHRRCFSCADCHRSLDST 177
+ WH+ CF C C + L
Sbjct: 25 QPWHKECFVCTACRKQLSGQ 44
>3f6q_B LIM and senescent cell antigen-like-containing domain protein 1;
ILK, integrin-linked kinase, pinch, ankyrin repeat, ANK,
IPP; 1.60A {Homo sapiens} PDB: 2kbx_B 3ixe_B
Length = 72
Score = 36.6 bits (85), Expect = 5e-04
Identities = 6/21 (28%), Positives = 10/21 (47%)
Query: 158 RIWHRRCFSCADCHRSLDSTN 178
++H +CF CA C +
Sbjct: 33 ELYHEQCFVCAQCFQQFPEGL 53
>1g47_A Pinch protein; LIM domain, Zn finger, cell adhesion; NMR {Homo
sapiens} SCOP: g.39.1.3 g.39.1.3
Length = 77
Score = 36.6 bits (85), Expect = 6e-04
Identities = 6/21 (28%), Positives = 10/21 (47%)
Query: 158 RIWHRRCFSCADCHRSLDSTN 178
++H +CF CA C +
Sbjct: 33 ELYHEQCFVCAQCFQQFPEGL 53
>2cup_A Skeletal muscle LIM-protein 1; four and half LIM domains protein 1,
LIM domain, structural genomics, NPPSFA; NMR {Homo
sapiens} SCOP: g.39.1.3 g.39.1.3 g.39.1.3
Length = 101
Score = 37.4 bits (87), Expect = 6e-04
Identities = 9/20 (45%), Positives = 10/20 (50%)
Query: 158 RIWHRRCFSCADCHRSLDST 177
R WH CF CA C L +
Sbjct: 27 RFWHDTCFRCAKCLHPLANE 46
Score = 32.4 bits (74), Expect = 0.033
Identities = 5/13 (38%), Positives = 7/13 (53%)
Query: 158 RIWHRRCFSCADC 170
+WH+ CFS
Sbjct: 88 TVWHKDCFSGPSS 100
>1x61_A Thyroid receptor interacting protein 6; LIM domain, OPA-interacting
protein 1, zyxin related protein 1 (ZRP-1), structural
genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3
g.39.1.3
Length = 72
Score = 36.7 bits (85), Expect = 6e-04
Identities = 7/17 (41%), Positives = 10/17 (58%)
Query: 158 RIWHRRCFSCADCHRSL 174
R++H CF C+ C L
Sbjct: 27 RVFHVGCFVCSTCRAQL 43
>2dlo_A Thyroid receptor-interacting protein 6; LIM domain, OPA-interacting
protein 1, zyxin related protein 1 (ZRP-1), structural
genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3
g.39.1.3
Length = 81
Score = 36.6 bits (85), Expect = 8e-04
Identities = 9/20 (45%), Positives = 12/20 (60%)
Query: 158 RIWHRRCFSCADCHRSLDST 177
+ +H CF+C CHR LD
Sbjct: 35 KAYHPGCFTCVVCHRGLDGI 54
>1x64_A Alpha-actinin-2 associated LIM protein; LIM domain, PDZ and LIM
domain 3, structural genomics, NPPSFA; NMR {Mus
musculus} SCOP: g.39.1.3 g.39.1.3
Length = 89
Score = 36.7 bits (85), Expect = 9e-04
Identities = 8/17 (47%), Positives = 11/17 (64%)
Query: 158 RIWHRRCFSCADCHRSL 174
+ H CF CADC+ +L
Sbjct: 45 KYRHPECFVCADCNLNL 61
>1nyp_A Pinch protein; LIM domain, protein recognition, cell adhesion; NMR
{Homo sapiens} SCOP: g.39.1.3 g.39.1.3 PDB: 1u5s_B
Length = 66
Score = 35.7 bits (83), Expect = 0.001
Identities = 6/19 (31%), Positives = 8/19 (42%)
Query: 158 RIWHRRCFSCADCHRSLDS 176
+ WH F CA C +
Sbjct: 25 KQWHVEHFVCAKCEKPFLG 43
>2jtn_A LIM domain-binding protein 1, LIM/homeobox protein LHX3;
intramolecular (fusion) protein-protein complex, protein
binding/transcription complex; NMR {Mus musculus}
Length = 182
Score = 37.6 bits (87), Expect = 0.001
Identities = 9/20 (45%), Positives = 11/20 (55%)
Query: 158 RIWHRRCFSCADCHRSLDST 177
R WH +C C+DCH L
Sbjct: 81 RHWHSKCLKCSDCHVPLAER 100
Score = 34.1 bits (78), Expect = 0.023
Identities = 7/17 (41%), Positives = 10/17 (58%)
Query: 158 RIWHRRCFSCADCHRSL 174
++H CF+C C R L
Sbjct: 141 FVYHLHCFACVVCKRQL 157
>2xqn_T Testin, TESS; metal-binding protein, cytoskeleton, focal adhesion,
acrosom; 2.62A {Homo sapiens}
Length = 126
Score = 36.6 bits (85), Expect = 0.002
Identities = 7/19 (36%), Positives = 9/19 (47%)
Query: 158 RIWHRRCFSCADCHRSLDS 176
+ WH + F C DC L
Sbjct: 24 QNWHLKHFCCFDCDSILAG 42
Score = 32.0 bits (73), Expect = 0.064
Identities = 7/17 (41%), Positives = 9/17 (52%), Gaps = 2/17 (11%)
Query: 160 WH--RRCFSCADCHRSL 174
WH CF C+ C + L
Sbjct: 87 WHASTECFLCSCCSKCL 103
>1x3h_A Leupaxin; paxillin family, protein-protein interaction, LIM domain,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
g.39.1.3 g.39.1.3
Length = 80
Score = 35.4 bits (82), Expect = 0.002
Identities = 8/17 (47%), Positives = 9/17 (52%)
Query: 158 RIWHRRCFSCADCHRSL 174
+WH CF C DC S
Sbjct: 35 TVWHPECFVCGDCFTSF 51
>2cor_A Pinch protein; LIM domain, particularly interesting NEW Cys- His
protein, LIM and senescent cell antigen-like domains 1,
structural genomics; NMR {Homo sapiens} SCOP: g.39.1.3
g.39.1.3
Length = 79
Score = 35.2 bits (81), Expect = 0.002
Identities = 6/20 (30%), Positives = 11/20 (55%)
Query: 158 RIWHRRCFSCADCHRSLDST 177
+H F+CA+C + L +
Sbjct: 35 DPYHPDHFNCANCGKELTAD 54
>2d8x_A Protein pinch; LIM domain, pinch protein, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3
g.39.1.3
Length = 70
Score = 35.1 bits (81), Expect = 0.002
Identities = 7/19 (36%), Positives = 7/19 (36%)
Query: 158 RIWHRRCFSCADCHRSLDS 176
WH CF C C L
Sbjct: 25 NSWHPECFRCDLCQEVLAD 43
>2dar_A PDZ and LIM domain protein 5; enigma homolog protein, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} SCOP:
g.39.1.3 g.39.1.3
Length = 90
Score = 35.5 bits (82), Expect = 0.002
Identities = 6/18 (33%), Positives = 10/18 (55%)
Query: 158 RIWHRRCFSCADCHRSLD 175
+ WH F+CA C ++
Sbjct: 45 KSWHPEEFNCAHCKNTMA 62
>2l3k_A Rhombotin-2, linker, LIM domain-binding protein 1;
LMO2(LIM2)-LDB1(LID), chimera, fusion protein,
oncoprotein; NMR {Mus musculus} PDB: 2l6y_B 2l6z_C
Length = 123
Score = 36.2 bits (83), Expect = 0.002
Identities = 6/17 (35%), Positives = 10/17 (58%)
Query: 158 RIWHRRCFSCADCHRSL 174
+++H CF CA C +
Sbjct: 30 KVYHLECFKCAACQKHF 46
>1v6g_A Actin binding LIM protein 2; LIM domain, zinc binding domain,
ablim2, structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Homo sapiens}
SCOP: g.39.1.3 g.39.1.3
Length = 81
Score = 35.1 bits (81), Expect = 0.002
Identities = 6/19 (31%), Positives = 8/19 (42%)
Query: 158 RIWHRRCFSCADCHRSLDS 176
+ +H CF CA C
Sbjct: 35 KTYHPDCFVCAVCRLPFPP 53
>2cuq_A Four and A half LIM domains 3; structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Length = 80
Score = 35.0 bits (81), Expect = 0.003
Identities = 7/16 (43%), Positives = 7/16 (43%)
Query: 160 WHRRCFSCADCHRSLD 175
WHR C C C L
Sbjct: 37 WHRECLVCTGCQTPLA 52
>2l4z_A DNA endonuclease RBBP8, LIM domain transcription LMO4;
protein-protein interaction, LIM-interaction DOM LMO4,
RBBP8/CTIP, LIM-only protein; HET: DNA; NMR {Homo
sapiens}
Length = 123
Score = 35.9 bits (82), Expect = 0.003
Identities = 7/21 (33%), Positives = 8/21 (38%)
Query: 158 RIWHRRCFSCADCHRSLDSTN 178
WH RC C+ C L
Sbjct: 82 SYWHSRCLKCSSCQAQLGDIG 102
>2xjy_A Rhombotin-2; oncoprotein, T-cell leukemia, proto-oncogene,
transcription, developmental protein; 2.40A {Homo
sapiens} PDB: 2xjz_A
Length = 131
Score = 35.9 bits (83), Expect = 0.003
Identities = 7/18 (38%), Positives = 8/18 (44%)
Query: 158 RIWHRRCFSCADCHRSLD 175
+ WH C SC C L
Sbjct: 23 QYWHEDCLSCDLCGCRLG 40
Score = 35.9 bits (83), Expect = 0.004
Identities = 6/18 (33%), Positives = 10/18 (55%)
Query: 158 RIWHRRCFSCADCHRSLD 175
+++H CF CA C +
Sbjct: 88 KVYHLECFKCAACQKHFC 105
>3sjy_A Translation initiation factor 2 subunit gamma; zinc finger,
initiate translation, tRNA binding, mRNA bindin binding;
HET: GCP GDP; 2.00A {Sulfolobus solfataricus P2} PDB:
3pen_A* 3sjz_A* 2qn6_A* 2aho_A 2qmu_A* 2plf_A* 3v11_A*
3i1f_A* 3cw2_A 2pmd_A* 3p3m_A* 3qsy_A*
Length = 403
Score = 36.8 bits (86), Expect = 0.005
Identities = 26/117 (22%), Positives = 41/117 (35%), Gaps = 32/117 (27%)
Query: 30 NFSIIAHVDHGKSTLADRLLEMTGTVLSSGSSQVLDSLQV--------EQERGIT----- 76
N ++ HVDHGK+TL + TG S ++ V +
Sbjct: 10 NIGVVGHVDHGKTTLVQAI---TGIWTSKKLGYAETNIGVCESCKKPEAYVTEPSCKSCG 66
Query: 77 VKAQTASLRYTSILDGEEYLLNLIDTPGHVDF-SNEVTRSLAACQ--GVVLLIDANQ 130
+ LR S ID PGH + ++ A G +L++ AN+
Sbjct: 67 SDDEPKFLRRISF----------IDAPGHEVLMATMLS---GAALMDGAILVVAANE 110
Score = 33.4 bits (77), Expect = 0.065
Identities = 9/15 (60%), Positives = 12/15 (80%)
Query: 203 NFSIIAHVDHGKSTL 217
N ++ HVDHGK+TL
Sbjct: 10 NIGVVGHVDHGKTTL 24
>1j2o_A FLIN2, fusion of rhombotin-2 and LIM domain-binding protein 1;
LIM-interaction-domain (LID), metal binding protein; NMR
{Mus musculus} SCOP: g.39.1.3 g.39.1.3
Length = 114
Score = 35.0 bits (80), Expect = 0.006
Identities = 7/21 (33%), Positives = 8/21 (38%)
Query: 158 RIWHRRCFSCADCHRSLDSTN 178
+ WH C SC C L
Sbjct: 24 QYWHEDCLSCDLCGCRLGEVG 44
Score = 26.6 bits (58), Expect = 4.5
Identities = 3/23 (13%), Positives = 5/23 (21%)
Query: 160 WHRRCFSCADCHRSLDSTNLNDG 182
+ D+ N D
Sbjct: 91 DEDERLITRLENTQFDAANGIDD 113
>1rut_X Flinc4, fusion protein of LMO4 protein and LIM domain- binding
protein 1; B-tandem zipper, protein binding; 1.30A {Mus
musculus} SCOP: g.39.1.3 g.39.1.3 g.39.1.3 g.39.1.3 PDB:
2dfy_X 2xjz_I 2xjy_B
Length = 188
Score = 35.8 bits (82), Expect = 0.006
Identities = 7/17 (41%), Positives = 8/17 (47%)
Query: 158 RIWHRRCFSCADCHRSL 174
WH RC C+ C L
Sbjct: 26 SYWHSRCLKCSSCQAQL 42
Score = 34.2 bits (78), Expect = 0.023
Identities = 6/17 (35%), Positives = 11/17 (64%)
Query: 158 RIWHRRCFSCADCHRSL 174
++H +CF+C+ C L
Sbjct: 91 NVYHLKCFTCSTCRNRL 107
>1x6a_A LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc finger domain,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
g.39.1.3 g.39.1.3
Length = 81
Score = 33.6 bits (77), Expect = 0.008
Identities = 5/17 (29%), Positives = 8/17 (47%)
Query: 158 RIWHRRCFSCADCHRSL 174
+H CF+C C +
Sbjct: 35 FKYHPECFACMSCKVII 51
>1m3v_A FLIN4, fusion of the LIM interacting domain of LDB1 and the
N-terminal LIM domain of LMO4...; fusion protein, LMO
proteins, metal binding protein; NMR {Mus musculus}
SCOP: g.39.1.3 g.39.1.3
Length = 122
Score = 34.6 bits (79), Expect = 0.009
Identities = 7/18 (38%), Positives = 8/18 (44%)
Query: 158 RIWHRRCFSCADCHRSLD 175
WH RC C+ C L
Sbjct: 26 SYWHSRCLKCSSCQAQLG 43
>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus
stearothermophilus} PDB: 2lkd_A*
Length = 178
Score = 34.9 bits (81), Expect = 0.010
Identities = 37/143 (25%), Positives = 52/143 (36%), Gaps = 54/143 (37%)
Query: 33 IIAHVDHGKSTLADRLLEMTGTVLSS---GSSQVLDSLQVEQERG-ITVKAQTASLRYTS 88
I+ HVDHGK+TL D + V G +Q + + QV IT
Sbjct: 13 IMGHVDHGKTTLLDAIRH--SKVTEQEAGGITQHIGAYQVTVNDKKIT------------ 58
Query: 89 ILDGEEYLLNLIDTPGHVDFSNEVTRS----------LAACQGV---------------V 123
+DTPGH F+ R +AA GV V
Sbjct: 59 ----------FLDTPGHEAFTTMRARGAQVTDIVILVVAADDGVMPQTVEAINHAKAANV 108
Query: 124 LLIDA-NQVDLKNANPEACEEQL 145
+I A N++D ANP+ ++L
Sbjct: 109 PIIVAINKMDKPEANPDRVMQEL 131
Score = 29.5 bits (67), Expect = 0.59
Identities = 10/16 (62%), Positives = 13/16 (81%)
Query: 206 IIAHVDHGKSTLADRL 221
I+ HVDHGK+TL D +
Sbjct: 13 IMGHVDHGKTTLLDAI 28
>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta
barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A
{Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*
Length = 190
Score = 34.9 bits (81), Expect = 0.012
Identities = 10/67 (14%), Positives = 18/67 (26%), Gaps = 9/67 (13%)
Query: 120 QGVVLLIDANQVDLKNA-NPEACEEQ--LQTLFNIDKKSVLRIWHRRCFSCADCHRSLDS 176
+ V +I N++D NA + L + R F C +
Sbjct: 123 KDVPFVILGNKIDAPNAVSEAELRSALGLLNTTGSQRIEGQRPVE--VFMC--S--VVMR 176
Query: 177 TNLNDGL 183
+
Sbjct: 177 NGYLEAF 183
>2iyb_E Testin, TESS, TES; LIM domain, SH3-binding, tumour supressor LIM
domain EVH1 DO cell motility, phosphorylation,
cytoskeleton; 2.35A {Homo sapiens}
Length = 65
Score = 32.5 bits (74), Expect = 0.017
Identities = 7/17 (41%), Positives = 9/17 (52%), Gaps = 2/17 (11%)
Query: 160 WH--RRCFSCADCHRSL 174
WH CF C+ C + L
Sbjct: 26 WHASTECFLCSCCSKCL 42
>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding,
membrane trafficking, structural genomics, structural
genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens}
SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*
Length = 188
Score = 33.3 bits (77), Expect = 0.044
Identities = 15/65 (23%), Positives = 27/65 (41%), Gaps = 12/65 (18%)
Query: 120 QGVVLLIDANQVDLKNA-NPEACEEQLQTLFNIDKKSVLRIWHRRCFSCADCHRSLDSTN 178
QG+ +L+ N+ DL A + + E++ L I R C+S + N
Sbjct: 123 QGIPVLVLGNKRDLPGALDEKELIEKMN-LSAIQD----REIC--CYSI--S--CKEKDN 171
Query: 179 LNDGL 183
++ L
Sbjct: 172 IDITL 176
>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET:
GDP; 2.50A {Bacillus subtilis}
Length = 436
Score = 33.2 bits (77), Expect = 0.073
Identities = 30/130 (23%), Positives = 52/130 (40%), Gaps = 36/130 (27%)
Query: 13 PDSKATPYEDIPIARIRNFSIIAHVDHGKSTLADRLLEMTGTVLSSGSSQVLDSLQVEQE 72
+ T Y + I F +I + GKS+L + +L G +V+ V
Sbjct: 164 KNIPETKYNEEVI----QFCLIGRPNVGKSSLVNAML---------GEERVI----VSNV 206
Query: 73 RGITVKAQTASLRYTSI-LDGEEYLLNLIDTPG-----HVDFSNE---VTRSLAA---CQ 120
G T A TS + +E+++ +DT G V + E V R+L A +
Sbjct: 207 AGTTRDAV-----DTSFTYNQQEFVI--VDTAGMRKKGKVYETTEKYSVLRALKAIDRSE 259
Query: 121 GVVLLIDANQ 130
V +++D +
Sbjct: 260 VVAVVLDGEE 269
>2fh5_B SR-beta, signal recognition particle receptor beta subunit;
endomembrane targeting, GTPase, GAP, longin domain,
SEDL, transport protein; HET: GTP; 2.45A {Mus musculus}
SCOP: c.37.1.8 PDB: 2go5_2
Length = 214
Score = 32.0 bits (73), Expect = 0.12
Identities = 26/131 (19%), Positives = 42/131 (32%), Gaps = 50/131 (38%)
Query: 97 LNLIDTPGH---------------------VDFSNEVTRSLAAC---------------Q 120
L LID PGH VD S R +
Sbjct: 56 LTLIDLPGHESLRFQLLDRFKSSARAVVFVVD-SAAFQREVKDVAEFLYQVLIDSMALKN 114
Query: 121 GVVLLIDANQVDLKNA-NPEACEEQLQTLFNIDKKSVLRIWHRRCFSCADCHRSLDSTNL 179
LLI N+ D+ A + + ++QL+ K + + R + + +LDS++
Sbjct: 115 SPSLLIACNKQDIAMAKSAKLIQQQLE-------KELNTLRVTRSAAPS----TLDSSST 163
Query: 180 NDG-LAKPDSK 189
L K +
Sbjct: 164 APAQLGKKGKE 174
>4ad9_A Lactb2, beta-lactamase-like protein 2; hydrolase, metallo-beta
lactamase, mitochondria; 2.60A {Homo sapiens}
Length = 289
Score = 32.1 bits (73), Expect = 0.13
Identities = 15/72 (20%), Positives = 28/72 (38%), Gaps = 3/72 (4%)
Query: 36 HVDHGKSTLADRLLEMTGTVLSSGSSQVLDSLQVEQERGITVKAQTASLRYTSILDGEEY 95
H DH S + + + ++ + Q E+ G + L+ ++ E
Sbjct: 80 HRDH--SGGIGDICKSINNDTTYCIKKLPRNPQREEIIGNGEQQYVY-LKDGDVIKTEGA 136
Query: 96 LLNLIDTPGHVD 107
L ++ TPGH D
Sbjct: 137 TLRVLYTPGHTD 148
>1upt_A ARL1, ADP-ribosylation factor-like protein 1;
hydrolase/protein-binding, complex (GTPase/golgin),
golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP;
1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*
Length = 171
Score = 31.4 bits (72), Expect = 0.14
Identities = 10/65 (15%), Positives = 24/65 (36%), Gaps = 12/65 (18%)
Query: 120 QGVVLLIDANQVDLKNA-NPEACEEQLQTLFNIDKKSVLRIWHRRCFSCADCHRSLDSTN 178
+ +L++ AN+ D++ A L L + + + F + T
Sbjct: 107 RKAILVVFANKQDMEQAMTSSEMANSLG-LPALKDR------KWQIFKT----SATKGTG 155
Query: 179 LNDGL 183
L++ +
Sbjct: 156 LDEAM 160
>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase,
nucleotide-binding; HET: GDP; 2.10A {Leishmania major}
Length = 189
Score = 31.5 bits (72), Expect = 0.17
Identities = 15/65 (23%), Positives = 25/65 (38%), Gaps = 12/65 (18%)
Query: 120 QGVVLLIDANQVDLKNA-NPEACEEQLQTLFNIDKKSVLRIWHRRCFSCADCHRSLDSTN 178
+ +LLI AN+ DL +A + EQL + +I + S
Sbjct: 122 RKSLLLIFANKQDLPDAASEAEIAEQLG-VSSIMNR------TWTIVKS----SSKTGDG 170
Query: 179 LNDGL 183
L +G+
Sbjct: 171 LVEGM 175
>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem
G-domains, ligand binding protein; HET: GDP; 1.90A
{Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1
Length = 439
Score = 31.7 bits (73), Expect = 0.20
Identities = 26/131 (19%), Positives = 44/131 (33%), Gaps = 33/131 (25%)
Query: 13 PDSKATPYEDIPIARIRNFSIIAHVDHGKSTLADRLLEMTGTVLSSGSSQVLDSLQVEQE 72
+ I +I+ + GKSTL + +L + L V
Sbjct: 165 EEKGLDLESKPEITDAIKVAIVGRPNVGKSTLFNAIL---------NKERAL----VSPI 211
Query: 73 RGITVKAQTASLRYTSI-LDGEEYLLNLIDTPG-----HVDFSN-E---VTRSLAA---C 119
G T + +DG +Y+ +DT G V+ E R + +
Sbjct: 212 PGTTRDPV-----DDEVFIDGRKYV--FVDTAGLRRKSRVEPRTVEKYSNYRVVDSIEKA 264
Query: 120 QGVVLLIDANQ 130
VV+++DA Q
Sbjct: 265 DVVVIVLDATQ 275
>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA,
ribosomal; 10.80A {Bos taurus}
Length = 537
Score = 31.8 bits (73), Expect = 0.21
Identities = 37/153 (24%), Positives = 52/153 (33%), Gaps = 79/153 (51%)
Query: 36 HVDHGKSTLADRLLEMTGTVLSSGSSQVLDSLQVEQERGITVKAQTASLRYTSILDGEE- 94
HVDHGK+TL LD LR T + E
Sbjct: 12 HVDHGKTTL-------------------LD-----------------KLRKTQVAAMEAG 35
Query: 95 --------YLLNL--------IDTPGHVDFSN------EVT----RSLAACQGV------ 122
+L++L +DTPGH FS +VT +AA GV
Sbjct: 36 GITQHIGAFLVSLPSGEKITFLDTPGHAAFSAMRARGTQVTDIVILVVAADDGVMKQTVE 95
Query: 123 ---------VLLIDA-NQVDLKNANPEACEEQL 145
V ++ A N+ D A+PE +++L
Sbjct: 96 SIQHAKDAHVPIVLAINKCDKAEADPEKVKKEL 128
Score = 31.0 bits (71), Expect = 0.37
Identities = 10/13 (76%), Positives = 12/13 (92%)
Query: 209 HVDHGKSTLADRL 221
HVDHGK+TL D+L
Sbjct: 12 HVDHGKTTLLDKL 24
>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein
binding; HET: GDP; 3.17A {Saccharomyces cerevisiae}
SCOP: c.37.1.8
Length = 183
Score = 30.7 bits (70), Expect = 0.29
Identities = 11/65 (16%), Positives = 23/65 (35%), Gaps = 12/65 (18%)
Query: 120 QGVVLLIDANQVDLKNA-NPEACEEQLQTLFNIDKKSVLRIWHRRCFSCADCHRSLDSTN 178
Q LL+ AN+ D A + ++L L + + + ++
Sbjct: 118 QDAALLVFANKQDQPGALSASEVSKELN-LVELKDR------SWSIVAS----SAIKGEG 166
Query: 179 LNDGL 183
+ +GL
Sbjct: 167 ITEGL 171
>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein
transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP:
c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*
Length = 198
Score = 30.7 bits (70), Expect = 0.31
Identities = 14/72 (19%), Positives = 20/72 (27%), Gaps = 14/72 (19%)
Query: 120 QGVVLLIDANQVDLKNA-NPEACEEQLQTLFNIDKKSVL-------RIWHRRCFSCADCH 171
V +LI N++D A + E E K + R F C
Sbjct: 125 ANVPILILGNKIDRPEAISEERLREMFGLYGQTTGKGSVSLKELNARPLE--VFMC--S- 179
Query: 172 RSLDSTNLNDGL 183
L +G
Sbjct: 180 -VLKRQGYGEGF 190
>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without
magnesium, ARF family, RAS superfamily, G-domain,
signaling protein; HET: MES GDP; 1.70A {Mus musculus}
SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*
Length = 181
Score = 30.2 bits (69), Expect = 0.37
Identities = 17/65 (26%), Positives = 24/65 (36%), Gaps = 12/65 (18%)
Query: 120 QGVVLLIDANQVDLKNA-NPEACEEQLQTLFNIDKKSVLRIWHRRCFSCADCHRSLDSTN 178
V +LI AN+ DL A E L L I + + SC +L
Sbjct: 116 SCVPVLIFANKQDLLTAAPASEIAEGLN-LHTIRDR------VWQIQSC----SALTGEG 164
Query: 179 LNDGL 183
+ DG+
Sbjct: 165 VQDGM 169
>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF
family; HET: CME GDP; 1.80A {Mus musculus} SCOP:
c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*
Length = 186
Score = 29.9 bits (68), Expect = 0.48
Identities = 19/65 (29%), Positives = 28/65 (43%), Gaps = 12/65 (18%)
Query: 120 QGVVLLIDANQVDLKNA-NPEACEEQLQTLFNIDKKSVLRIWHRRCFSCADCHRSLDSTN 178
G LLI AN+ DL A + A +E L+ L +I H R C ++ +
Sbjct: 118 AGATLLIFANKQDLPGALSCNAIQEALE-LDSIRSH------HWRIQGC----SAVTGED 166
Query: 179 LNDGL 183
L G+
Sbjct: 167 LLPGI 171
>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport
protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8
Length = 187
Score = 29.9 bits (68), Expect = 0.58
Identities = 15/65 (23%), Positives = 23/65 (35%), Gaps = 12/65 (18%)
Query: 120 QGVVLLIDANQVDLKNA-NPEACEEQLQTLFNIDKKSVLRIWHRRCFSCADCHRSLDSTN 178
+ LLI AN+ D+K + L+ L +I +C +L
Sbjct: 116 RKAGLLIFANKQDVKECMTVAEISQFLK-LTSIKDH------QWHIQAC----CALTGEG 164
Query: 179 LNDGL 183
L GL
Sbjct: 165 LCQGL 169
>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein
transport, G protein, proline isomerization, circular
permutation; 2.20A {Saccharomyces cerevisiae}
Length = 193
Score = 29.7 bits (67), Expect = 0.68
Identities = 15/66 (22%), Positives = 28/66 (42%), Gaps = 7/66 (10%)
Query: 97 LNLIDTPGHV----DFSNEVTRSLAACQGVVLLIDANQVDLKNANPEACEEQLQTLFNID 152
+ L+D PGHV S+ + +G++ ++D+ D K E L + +I
Sbjct: 93 VTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTV-DPKKL--TTTAEFLVDILSIT 149
Query: 153 KKSVLR 158
+ S
Sbjct: 150 ESSCEN 155
>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor,
protein transport-exchang complex; HET: GDP; 1.46A {Bos
taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A*
1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A*
1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A*
2a5f_A* 2j5x_A* 1e0s_A* ...
Length = 164
Score = 29.5 bits (67), Expect = 0.71
Identities = 15/65 (23%), Positives = 27/65 (41%), Gaps = 12/65 (18%)
Query: 120 QGVVLLIDANQVDLKNA-NPEACEEQLQTLFNIDKKSVLRIWHRRCFSCADCHRSLDSTN 178
+ VLL+ AN+ DL NA N ++L L ++ + + + +
Sbjct: 100 RDAVLLVFANKQDLPNAMNAAEITDKLG-LHSLRHR------NWYIQAT----CATSGDG 148
Query: 179 LNDGL 183
L +GL
Sbjct: 149 LYEGL 153
>1nrj_B SR-beta, signal recognition particle receptor beta subunit;
transmembrane, endoplasmic reticulum, GTP-binding; HET:
GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8
Length = 218
Score = 29.7 bits (67), Expect = 0.81
Identities = 15/66 (22%), Positives = 28/66 (42%), Gaps = 7/66 (10%)
Query: 97 LNLIDTPGHV----DFSNEVTRSLAACQGVVLLIDANQVDLKNANPEACEEQLQTLFNID 152
+ L+D PGHV S+ + +G++ ++D+ D K E L + +I
Sbjct: 57 VTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTV-DPKKL--TTTAEFLVDILSIT 113
Query: 153 KKSVLR 158
+ S
Sbjct: 114 ESSCEN 119
>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane
trafficking, structural genomics consortium, SGC,
transport protein; HET: GDP; 1.70A {Homo sapiens} PDB:
2h16_A* 1z6y_A* 1yzg_A*
Length = 181
Score = 29.1 bits (66), Expect = 1.0
Identities = 15/65 (23%), Positives = 23/65 (35%), Gaps = 12/65 (18%)
Query: 120 QGVVLLIDANQVDLKNA-NPEACEEQLQTLFNIDKKSVLRIWHRRCFSCADCHRSLDSTN 178
+ LLI AN+ D+K + L+ L +I +C +L
Sbjct: 121 RKAGLLIFANKQDVKECMTVAEISQFLK-LTSIKDH------QWHIQAC----CALTGEG 169
Query: 179 LNDGL 183
L GL
Sbjct: 170 LCQGL 174
>1zo1_I IF2, translation initiation factor 2; E. coli, ribosome, initiation
of protein synthesis, cryo-eletron microscopy,
translation/RNA complex; 13.80A {Escherichia coli}
Length = 501
Score = 29.4 bits (67), Expect = 1.1
Identities = 36/144 (25%), Positives = 59/144 (40%), Gaps = 56/144 (38%)
Query: 33 IIAHVDHGKSTLADRLLEMTGTVLSSGSS----QVLDSLQVEQERG-ITVKAQTASLRYT 87
I+ HVDHGK++L + + T ++SG + Q + + VE E G IT
Sbjct: 9 IMGHVDHGKTSLLEYIRS---TKVASGEAGGITQHIGAYHVETENGMIT----------- 54
Query: 88 SILDGEEYLLNLIDTPGHVDFSN------EVT----RSLAACQGV--------------- 122
+DTPGH F++ + T +AA GV
Sbjct: 55 -----------FLDTPGHAAFTSMRARGAQATDIVVLVVAADDGVMPQTIEAIQHAKAAQ 103
Query: 123 VLLIDA-NQVDLKNANPEACEEQL 145
V ++ A N++D A+P+ + +L
Sbjct: 104 VPVVVAVNKIDKPEADPDRVKNEL 127
Score = 29.4 bits (67), Expect = 1.3
Identities = 8/16 (50%), Positives = 13/16 (81%)
Query: 206 IIAHVDHGKSTLADRL 221
I+ HVDHGK++L + +
Sbjct: 9 IMGHVDHGKTSLLEYI 24
>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane
trafficking, structural genomics consortium, SGC,
transport protein; HET: GTP; 2.00A {Homo sapiens}
Length = 190
Score = 29.2 bits (66), Expect = 1.1
Identities = 13/65 (20%), Positives = 26/65 (40%), Gaps = 12/65 (18%)
Query: 120 QGVVLLIDANQVDLKNA-NPEACEEQLQTLFNIDKKSVLRIWHRRCFSCADCHRSLDSTN 178
+ + +L AN++DL++A + L L NI K + ++
Sbjct: 125 RRIPILFFANKMDLRDAVTSVKVSQLLC-LENIKDK------PWHICAS----DAIKGEG 173
Query: 179 LNDGL 183
L +G+
Sbjct: 174 LQEGV 178
>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation
factor 1; structural genomics consortium, GTPase
activation; HET: GDP; 2.80A {Homo sapiens}
Length = 329
Score = 29.1 bits (65), Expect = 1.3
Identities = 15/65 (23%), Positives = 27/65 (41%), Gaps = 12/65 (18%)
Query: 120 QGVVLLIDANQVDLKNA-NPEACEEQLQTLFNIDKKSVLRIWHRRCFSCADCHRSLDSTN 178
+ VLL+ AN+ DL NA N ++L L ++ + + + +
Sbjct: 265 RDAVLLVFANKQDLPNAMNAAEITDKLG-LHSLRHR------NWYIQAT----CATSGDG 313
Query: 179 LNDGL 183
L +GL
Sbjct: 314 LYEGL 318
>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural
genomics, structural G consortium, SGC, protein
transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8
PDB: 1z6x_A* 3aq4_A*
Length = 192
Score = 28.8 bits (65), Expect = 1.4
Identities = 15/65 (23%), Positives = 26/65 (40%), Gaps = 12/65 (18%)
Query: 120 QGVVLLIDANQVDLKNA-NPEACEEQLQTLFNIDKKSVLRIWHRRCFSCADCHRSLDSTN 178
+ VLL+ AN+ D+ NA ++L L ++ + + + T
Sbjct: 129 RDAVLLVFANKQDMPNAMPVSELTDKLG-LQHLRSR------TWYVQAT----CATQGTG 177
Query: 179 LNDGL 183
L DGL
Sbjct: 178 LYDGL 182
>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein,
ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP;
1.78A {Arabidopsis thaliana}
Length = 212
Score = 28.5 bits (64), Expect = 1.8
Identities = 11/37 (29%), Positives = 18/37 (48%), Gaps = 2/37 (5%)
Query: 90 LDGEEYLLNLIDTPGHVDFSNEVTRSLAACQGVVLLI 126
+DG+ L L DT G D+S R L+ + ++
Sbjct: 52 VDGQIVNLGLWDTAGQEDYSR--LRPLSYRGADIFVL 86
>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 = 28.0 bits (61), Expect = 2.1
Identities = 7/24 (29%), Positives = 10/24 (41%), Gaps = 11/24 (45%)
Query: 1 SSVYFYSTEAAKPDS------KAT 18
+S+ Y+ DS KAT
Sbjct: 27 ASLKLYA-----DDSAPALAIKAT 45
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 28.2 bits (62), Expect = 2.2
Identities = 8/56 (14%), Positives = 19/56 (33%), Gaps = 6/56 (10%)
Query: 4 YFYSTEAAKPDSK-----ATPYEDIPIARIRNFSIIAHVDHGKSTLADRLLEMTGT 54
++ + K P+E+I I + I+ ++ D + E+
Sbjct: 150 GLELSDTKQKGKKFLVIAYEPFENIAI-ELPPNEILFSENNDMDNNNDGVDELNKK 204
>1wig_A KIAA1808 protein; LIM domain, zinc finger, metal-binding protein,
structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Homo sapiens}
SCOP: g.39.1.3 g.39.1.3
Length = 73
Score = 26.6 bits (58), Expect = 2.4
Identities = 4/15 (26%), Positives = 6/15 (40%)
Query: 160 WHRRCFSCADCHRSL 174
+H C C C +
Sbjct: 27 YHPSCALCVRCGQMF 41
>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like,
hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8
d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X
Length = 301
Score = 28.2 bits (64), Expect = 2.5
Identities = 26/105 (24%), Positives = 40/105 (38%), Gaps = 28/105 (26%)
Query: 40 GKSTLADRLLEMTGTVLSSGSSQVLDSLQVEQERGITVKAQTASLRYTSILDGEEYLLNL 99
GKSTL ++LL G +S S KAQT R I Y
Sbjct: 20 GKSTLLNKLL---GQKISITSR----------------KAQTTRHRIVGIHTEGAYQAIY 60
Query: 100 IDTPG-HVDFSNEVTRSL--AACQG------VVLLIDANQVDLKN 135
+DTPG H++ + R + AA V+ +++ + +
Sbjct: 61 VDTPGLHMEEKRAINRLMNKAASSSIGDVELVIFVVEGTRWTPDD 105
>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase;
HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A*
4dso_A*
Length = 189
Score = 27.9 bits (63), Expect = 2.5
Identities = 12/42 (28%), Positives = 23/42 (54%)
Query: 83 SLRYTSILDGEEYLLNLIDTPGHVDFSNEVTRSLAACQGVVL 124
S R ++DGE LL+++DT G ++S + + +G +
Sbjct: 40 SYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLC 81
>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene,
disease mutation, golgi apparatus, GTP-binding,
lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo
sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*
Length = 190
Score = 27.9 bits (63), Expect = 2.6
Identities = 12/42 (28%), Positives = 23/42 (54%)
Query: 83 SLRYTSILDGEEYLLNLIDTPGHVDFSNEVTRSLAACQGVVL 124
S R ++DGE LL+++DT G ++S + + +G +
Sbjct: 57 SYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLC 98
>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium,
SGC, limited proteolysis, GTP-binding,
nucleotide-binding, signaling protein; HET: GDP; 1.85A
{Homo sapiens}
Length = 187
Score = 27.5 bits (62), Expect = 3.0
Identities = 7/40 (17%), Positives = 13/40 (32%), Gaps = 1/40 (2%)
Query: 85 RYTSILDGEEYLLNLIDTPGHVDFSNEVTRSLAACQGVVL 124
+D + L ++DT N R L ++
Sbjct: 59 SSEETVDHQPVHLRVMDTADLDTPRN-CERYLNWAHAFLV 97
>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 = 27.8 bits (61), Expect = 4.5
Identities = 15/71 (21%), Positives = 25/71 (35%), Gaps = 14/71 (19%)
Query: 40 GKSTLADRLLEMTGTVLSSGSSQVLDSLQVEQERGITVKAQTASLRYTSILDGEEYLLNL 99
GKSTL D L ++ + G+ +++ T L+ L +
Sbjct: 54 GKSTLMDTLFN----------TKFEGEPATHTQPGVQLQSNTYDLQE----SNVRLKLTI 99
Query: 100 IDTPGHVDFSN 110
+ T G D N
Sbjct: 100 VSTVGFGDQIN 110
>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein
complex, effectors, signaling protein; HET: GTP; 1.90A
{Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A*
3cf6_R* 3brw_D*
Length = 167
Score = 26.7 bits (60), Expect = 5.0
Identities = 9/35 (25%), Positives = 17/35 (48%)
Query: 90 LDGEEYLLNLIDTPGHVDFSNEVTRSLAACQGVVL 124
+D ++ +L ++DT G F+ + QG L
Sbjct: 46 VDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFAL 80
>3q5d_A Atlastin-1; G protein, GTPase, GDP/GTP binding, hydrolase; HET:
GDP; 2.70A {Homo sapiens} PDB: 3q5e_A* 3qnu_A* 3qof_A*
Length = 447
Score = 27.7 bits (60), Expect = 5.1
Identities = 23/151 (15%), Positives = 44/151 (29%), Gaps = 9/151 (5%)
Query: 9 EAAKPDSKATPYEDIPIARIRNFSIIAHVDHGKSTLADRLLEMTGTVLSSGSSQVLDSLQ 68
A + D + + S+ GKS L D +L S +
Sbjct: 51 TALNRILLSEAVRDKEVVAV---SVAGAFRKGKSFLMDFMLRYMYNQESVDWVGDYNEPL 107
Query: 69 VEQERGITVKAQTASL------RYTSILDGEEYLLNLIDTPGHVDFSNEVTRSLAACQGV 122
+ +T + + DG++ + L+DT G D + + S
Sbjct: 108 TGFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVLLMDTQGTFDSQSTLRDSATVFALS 167
Query: 123 VLLIDANQVDLKNANPEACEEQLQTLFNIDK 153
++ +L E + LQ +
Sbjct: 168 TMISSIQVYNLSQNVQEDDLQHLQLFTEYGR 198
>3adr_A Putative uncharacterized protein ST1585; quorum sensing, quinolone
signal, metallo-beta-lactamase FOL conserved
hypothetical protein; HET: EPE; 1.80A {Sulfolobus
tokodaii}
Length = 261
Score = 27.0 bits (60), Expect = 6.7
Identities = 19/92 (20%), Positives = 29/92 (31%), Gaps = 23/92 (25%)
Query: 35 AHVDHGKSTLADRLLEMTG-------------------TVLSSGSSQVL-DSLQVEQERG 74
H+DH L LL++ L+ + +VL D V
Sbjct: 59 LHIDH--IGLLPELLQVYKAKVLVKSGFKKYLTSEDGLKKLNESAEKVLGDLYYVYGGLE 116
Query: 75 ITVKA-QTASLRYTSILDGEEYLLNLIDTPGH 105
+ + + D Y + LI TPGH
Sbjct: 117 KKLDQDKVIEVEGNEEFDLGGYRMRLIYTPGH 148
>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein;
HET: GDP; 1.20A {Mus musculus} PDB: 3kkp_A* 3kko_A*
3pit_A* 3pir_A* 1x1r_A* 1x1s_A*
Length = 183
Score = 26.4 bits (59), Expect = 6.9
Identities = 9/42 (21%), Positives = 21/42 (50%)
Query: 83 SLRYTSILDGEEYLLNLIDTPGHVDFSNEVTRSLAACQGVVL 124
S + +D + +L+++DT G +FS + + G ++
Sbjct: 54 SYLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLI 95
>3lvq_E ARF-GAP with SH3 domain, ANK repeat and PH domain containing
protein 3, ADP-ribosylation...; GDP, ASAP3, UPLC1,
linkers, alternat splicing; HET: GDP; 3.38A {Homo
sapiens} PDB: 3lvr_E*
Length = 497
Score = 27.2 bits (60), Expect = 6.9
Identities = 10/28 (35%), Positives = 17/28 (60%), Gaps = 1/28 (3%)
Query: 120 QGVVLLIDANQVDLKNA-NPEACEEQLQ 146
+ ++LI AN+ DL +A P +E+L
Sbjct: 422 RDAIILIFANKQDLPDAMKPHEIQEKLG 449
>3cao_A Cytochrome C3; tetraheme, oxidised form, electron transport; HET:
HEM; 1.60A {Desulfovibrio africanus} SCOP: a.138.1.1
PDB: 3car_A*
Length = 103
Score = 26.0 bits (56), Expect = 7.0
Identities = 7/56 (12%), Positives = 19/56 (33%), Gaps = 11/56 (19%)
Query: 127 DANQVDLKNANPEACEEQLQTLFNIDKKSVLRIWHRRC-----------FSCADCH 171
+ + +++ C + + D + +H++C C +CH
Sbjct: 45 NGVLAEDEDSVGTPCSDCHALEQDGDTPGLQDAYHQQCWGCHEKQAKGPVMCGECH 100
>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein,
fluor membrane, lipoprotein, palmitate, prenylation;
HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X*
2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A*
6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A*
1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...
Length = 166
Score = 26.3 bits (59), Expect = 7.3
Identities = 12/42 (28%), Positives = 23/42 (54%)
Query: 83 SLRYTSILDGEEYLLNLIDTPGHVDFSNEVTRSLAACQGVVL 124
S R ++DGE LL+++DT G ++S + + +G +
Sbjct: 39 SYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLC 80
>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein;
HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8
Length = 172
Score = 26.3 bits (59), Expect = 7.7
Identities = 7/27 (25%), Positives = 9/27 (33%)
Query: 83 SLRYTSILDGEEYLLNLIDTPGHVDFS 109
+ R D L + DT G F
Sbjct: 39 TYRQVISCDKSICTLQITDTTGSHQFP 65
>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote
initiative, RSGI, structural genomics, hydrolase; HET:
GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8
d.52.3.1
Length = 301
Score = 26.7 bits (60), Expect = 8.2
Identities = 24/103 (23%), Positives = 33/103 (32%), Gaps = 35/103 (33%)
Query: 40 GKSTLADRLLEMTGTVLSSGSSQVLDSLQVEQERGIT-VKAQTASLRYTSILDGEEYLLN 98
GKSTL + LL G ++ + QT R IL +
Sbjct: 19 GKSTLLNNLL---GVKVA-----------------PISPRPQTTRKRLRGILTEGRRQIV 58
Query: 99 LIDTPG-H----------VDFSNEVTRSLAACQGVVLLIDANQ 130
+DTPG H V +LA VV ++D
Sbjct: 59 FVDTPGLHKPMDALGEFMDQE---VYEALADVNAVVWVVDLRH 98
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
0.315 0.130 0.363
Gapped
Lambda K H
0.267 0.0784 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,749,393
Number of extensions: 219020
Number of successful extensions: 883
Number of sequences better than 10.0: 1
Number of HSP's gapped: 808
Number of HSP's successfully gapped: 165
Length of query: 257
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 165
Effective length of database: 4,133,061
Effective search space: 681955065
Effective search space used: 681955065
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 (21.6 bits)
S2: 56 (25.2 bits)