RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4669
(139 letters)
>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA,
ribosomal; 10.80A {Bos taurus}
Length = 537
Score = 114 bits (287), Expect = 6e-31
Identities = 34/44 (77%), Positives = 35/44 (79%)
Query: 84 MKRPPVVTIMGHVDHGKTTLLDTLRNTSVVKSEFGGITQHIGAF 127
+ R PVVTIMGHVDHGKTTLLD LR T V E GGITQHIGAF
Sbjct: 1 IPRSPVVTIMGHVDHGKTTLLDKLRKTQVAAMEAGGITQHIGAF 44
>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus
stearothermophilus} PDB: 2lkd_A*
Length = 178
Score = 96.2 bits (240), Expect = 2e-26
Identities = 32/45 (71%), Positives = 40/45 (88%)
Query: 83 LMKRPPVVTIMGHVDHGKTTLLDTLRNTSVVKSEFGGITQHIGAF 127
+++RPPVVTIMGHVDHGKTTLLD +R++ V + E GGITQHIGA+
Sbjct: 4 MVERPPVVTIMGHVDHGKTTLLDAIRHSKVTEQEAGGITQHIGAY 48
>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 = 100 bits (252), Expect = 5e-26
Identities = 30/41 (73%), Positives = 34/41 (82%)
Query: 86 RPPVVTIMGHVDHGKTTLLDTLRNTSVVKSEFGGITQHIGA 126
R PVVTIMGHVDHGKT+LL+ +R+T V E GGITQHIGA
Sbjct: 3 RAPVVTIMGHVDHGKTSLLEYIRSTKVASGEAGGITQHIGA 43
>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 = 100 bits (251), Expect = 7e-26
Identities = 27/44 (61%), Positives = 35/44 (79%)
Query: 83 LMKRPPVVTIMGHVDHGKTTLLDTLRNTSVVKSEFGGITQHIGA 126
+ R P+V+++GHVDHGKTTLLD +R ++V E GGITQHIGA
Sbjct: 1 MKIRSPIVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGA 44
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 42.1 bits (98), Expect = 2e-05
Identities = 30/153 (19%), Positives = 52/153 (33%), Gaps = 41/153 (26%)
Query: 3 LKDLAKSM--GVDCDHLYE----------------------VMMYVDNSVNYDRPSSVIY 38
++D+ KS+ + DH+ V +V+ + + Y
Sbjct: 38 VQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRIN------Y 91
Query: 39 DF---QVIIDIIQKSGMKYMVINPTNSVADDSN---GKDVERRPPADP--SVLMK-RP-P 88
F + + Q S M M I + + +D+ +V R P L++ RP
Sbjct: 92 KFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAK 151
Query: 89 VVTIMGHVDHGKTTLL-DTLRNTSVVKSEFGGI 120
V I G + GKT + D + V I
Sbjct: 152 NVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKI 184
Score = 32.5 bits (73), Expect = 0.040
Identities = 18/84 (21%), Positives = 36/84 (42%), Gaps = 28/84 (33%)
Query: 2 TLKDLAKSMGVDCDHLYEVMMYV-DNSVNYDRPSSVIYDF-----QVII-----DIIQKS 50
TL+ L Y+ Y+ DN Y+R + I DF + +I D+++ +
Sbjct: 523 TLQQLKF---------YK--PYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIA 571
Query: 51 GMKYMVINPTNSVADDSNGKDVER 74
M ++ ++++ K V+R
Sbjct: 572 LM-----AEDEAIFEEAH-KQVQR 589
Score = 31.0 bits (69), Expect = 0.12
Identities = 23/132 (17%), Positives = 43/132 (32%), Gaps = 23/132 (17%)
Query: 5 DLAKSMGVDCDHLYEVMMYVDNSVNYDRPSSVIYDFQVIIDIIQKSGMKYMVINPTNSVA 64
D+ S V C +++ ++ N N + P +V+ Q ++ I + +S
Sbjct: 169 DVCLSYKVQCKMDFKIF-WL-NLKNCNSPETVLEMLQKLLYQIDPNW----TSRSDHSSN 222
Query: 65 DDSNGKDVERRPPADPSVLMKRPPVVT---IMGHV---------DHGKTTLLDTLRNTSV 112
++ L+K P ++ +V + LL T R V
Sbjct: 223 IKLRIHSIQAEL----RRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTT-RFKQV 277
Query: 113 VKSEFGGITQHI 124
T HI
Sbjct: 278 TDFLSAATTTHI 289
>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 = 40.0 bits (93), Expect = 9e-05
Identities = 12/28 (42%), Positives = 19/28 (67%), Gaps = 3/28 (10%)
Query: 83 LMKRPPV---VTIMGHVDHGKTTLLDTL 107
LM + ++++ HVDHGK+TL D+L
Sbjct: 12 LMDKVTNVRNMSVIAHVDHGKSTLTDSL 39
>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 = 36.1 bits (83), Expect = 0.002
Identities = 12/13 (92%), Positives = 12/13 (92%), Gaps = 1/13 (7%)
Query: 91 TIMGHVDHGKTTL 103
TI GHVDHGKTTL
Sbjct: 301 TI-GHVDHGKTTL 312
>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 = 34.8 bits (81), Expect = 0.004
Identities = 12/13 (92%), Positives = 12/13 (92%), Gaps = 1/13 (7%)
Query: 91 TIMGHVDHGKTTL 103
TI GHVDHGKTTL
Sbjct: 16 TI-GHVDHGKTTL 27
>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 = 34.5 bits (80), Expect = 0.006
Identities = 12/13 (92%), Positives = 12/13 (92%), Gaps = 1/13 (7%)
Query: 91 TIMGHVDHGKTTL 103
TI GHVDHGKTTL
Sbjct: 8 TI-GHVDHGKTTL 19
>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 = 34.5 bits (80), Expect = 0.006
Identities = 11/22 (50%), Positives = 14/22 (63%), Gaps = 2/22 (9%)
Query: 84 MKRPPVVTI--MGHVDHGKTTL 103
+ V I +GHVDHGKT+L
Sbjct: 3 LGSQAEVNIGMVGHVDHGKTSL 24
>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 = 34.3 bits (79), Expect = 0.007
Identities = 11/24 (45%), Positives = 14/24 (58%), Gaps = 1/24 (4%)
Query: 80 PSVLMKRPPVVTIMGHVDHGKTTL 103
P + K + GH+DHGKTTL
Sbjct: 13 PHMDFKNINLGIF-GHIDHGKTTL 35
>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 = 34.1 bits (79), Expect = 0.007
Identities = 10/13 (76%), Positives = 11/13 (84%), Gaps = 1/13 (7%)
Query: 91 TIMGHVDHGKTTL 103
+ GHVDHGKTTL
Sbjct: 13 VV-GHVDHGKTTL 24
>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 = 34.1 bits (79), Expect = 0.008
Identities = 10/13 (76%), Positives = 11/13 (84%), Gaps = 1/13 (7%)
Query: 91 TIMGHVDHGKTTL 103
+ GHVDHGKTTL
Sbjct: 15 MV-GHVDHGKTTL 26
>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC,
mitosis, GDP, C cycle, cell division, GTP-binding,
nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB:
2qa5_A* 3ftq_A*
Length = 301
Score = 31.7 bits (71), Expect = 0.058
Identities = 10/35 (28%), Positives = 18/35 (51%), Gaps = 2/35 (5%)
Query: 84 MKRPPVVTIM--GHVDHGKTTLLDTLRNTSVVKSE 116
+K+ T+M G GK+TL+++L T +
Sbjct: 13 VKKGFEFTLMVVGESGLGKSTLINSLFLTDLYPER 47
>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 = 31.3 bits (70), Expect = 0.083
Identities = 15/52 (28%), Positives = 24/52 (46%), Gaps = 2/52 (3%)
Query: 84 MKRPPVVTIM--GHVDHGKTTLLDTLRNTSVVKSEFGGITQHIGAFVGFLYH 133
+KR T+M G GK+TL+++L T + E+ G + I V
Sbjct: 26 VKRGFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQS 77
>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine,
structural genomics, NPPSFA; HET: CIT; 1.70A
{Methanosarcina mazei}
Length = 370
Score = 30.2 bits (69), Expect = 0.17
Identities = 6/15 (40%), Positives = 9/15 (60%)
Query: 90 VTIMGHVDHGKTTLL 104
V I+G G+T+L
Sbjct: 24 VAIIGTEKSGRTSLA 38
Score = 27.5 bits (62), Expect = 1.6
Identities = 3/10 (30%), Positives = 4/10 (40%)
Query: 94 GHVDHGKTTL 103
H H + L
Sbjct: 5 HHHHHHSSGL 14
>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 = 30.1 bits (69), Expect = 0.20
Identities = 11/16 (68%), Positives = 13/16 (81%)
Query: 92 IMGHVDHGKTTLLDTL 107
I+ HVDHGK+TL D L
Sbjct: 11 IIAHVDHGKSTLADRL 26
>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane,
nucleotide-binding, translation; 2.80A {Escherichia
coli} PDB: 3deg_C*
Length = 599
Score = 30.1 bits (69), Expect = 0.23
Identities = 9/16 (56%), Positives = 13/16 (81%)
Query: 92 IMGHVDHGKTTLLDTL 107
I+ H+DHGK+TL D +
Sbjct: 9 IIAHIDHGKSTLSDRI 24
>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein;
HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*
Length = 274
Score = 29.7 bits (66), Expect = 0.24
Identities = 12/43 (27%), Positives = 21/43 (48%), Gaps = 2/43 (4%)
Query: 84 MKRPPVVTIM--GHVDHGKTTLLDTLRNTSVVKSEFGGITQHI 124
+ T+M G GK+TL+++L T + E+ G + I
Sbjct: 3 LGSGFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRI 45
>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 = 29.3 bits (65), Expect = 0.34
Identities = 11/35 (31%), Positives = 16/35 (45%), Gaps = 2/35 (5%)
Query: 84 MKRPPVVTIM--GHVDHGKTTLLDTLRNTSVVKSE 116
+ + I+ G GK+TL+DTL NT
Sbjct: 37 VSQGFCFNILCVGETGLGKSTLMDTLFNTKFEGEP 71
>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex,
transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}
Length = 460
Score = 29.4 bits (65), Expect = 0.37
Identities = 10/28 (35%), Positives = 15/28 (53%)
Query: 85 KRPPVVTIMGHVDHGKTTLLDTLRNTSV 112
P V I+G GKT+L TL + ++
Sbjct: 136 FEGPRVVIVGGSQTGKTSLSRTLCSYAL 163
>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay,
ribosomal protein,hydrolase; 9.50A {Saccharomyces
cerevisiae}
Length = 611
Score = 29.3 bits (66), Expect = 0.38
Identities = 8/12 (66%), Positives = 11/12 (91%)
Query: 92 IMGHVDHGKTTL 103
++GHVD GK+TL
Sbjct: 172 VLGHVDAGKSTL 183
>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 = 29.1 bits (66), Expect = 0.39
Identities = 8/12 (66%), Positives = 11/12 (91%)
Query: 92 IMGHVDHGKTTL 103
++GHVD GK+TL
Sbjct: 38 VLGHVDAGKSTL 49
>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 = 29.2 bits (66), Expect = 0.44
Identities = 8/12 (66%), Positives = 10/12 (83%)
Query: 92 IMGHVDHGKTTL 103
+GHVD GK+TL
Sbjct: 48 FIGHVDAGKSTL 59
>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 = 29.2 bits (66), Expect = 0.47
Identities = 9/14 (64%), Positives = 13/14 (92%)
Query: 90 VTIMGHVDHGKTTL 103
+ ++GHVDHGK+TL
Sbjct: 9 LIVIGHVDHGKSTL 22
>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein
complex, translation regulation; 2.74A
{Schizosaccharomyces pombe}
Length = 592
Score = 28.9 bits (65), Expect = 0.50
Identities = 7/12 (58%), Positives = 10/12 (83%)
Query: 92 IMGHVDHGKTTL 103
+ GHVD GK+T+
Sbjct: 182 VTGHVDSGKSTM 193
>3eyp_A Putative alpha-L-fucosidase; structural genomics, hydrolase,
lipoprotein, PSI-2, protein initiative; 1.90A
{Bacteroides thetaiotaomicron}
Length = 469
Score = 28.8 bits (64), Expect = 0.63
Identities = 2/20 (10%), Positives = 10/20 (50%)
Query: 38 YDFQVIIDIIQKSGMKYMVI 57
D + + ++ +G+ ++
Sbjct: 54 LDCRQWMQTLKAAGIPAAIL 73
>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 = 28.7 bits (63), Expect = 0.67
Identities = 10/35 (28%), Positives = 18/35 (51%), Gaps = 2/35 (5%)
Query: 84 MKRPPVVTIM--GHVDHGKTTLLDTLRNTSVVKSE 116
+K+ T+M G GK+TL+++L T +
Sbjct: 32 VKKGFEFTLMVVGESGLGKSTLINSLFLTDLYPER 66
>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 = 28.5 bits (64), Expect = 0.71
Identities = 8/14 (57%), Positives = 11/14 (78%)
Query: 90 VTIMGHVDHGKTTL 103
V ++GHVD GK+T
Sbjct: 10 VVVIGHVDSGKSTT 23
>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 = 28.3 bits (64), Expect = 0.95
Identities = 9/25 (36%), Positives = 11/25 (44%), Gaps = 5/25 (20%)
Query: 84 MKRPPV-----VTIMGHVDHGKTTL 103
M V ++GH GKTTL
Sbjct: 1 MGTEGGAMIRTVALVGHAGSGKTTL 25
>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB);
structural genomics, PSI, protein structure initiative;
2.10A {Archaeoglobus fulgidus}
Length = 171
Score = 27.3 bits (60), Expect = 1.3
Identities = 8/21 (38%), Positives = 14/21 (66%)
Query: 87 PPVVTIMGHVDHGKTTLLDTL 107
+++I+G D GKTTL+ +
Sbjct: 2 SLILSIVGTSDSGKTTLITRM 22
>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed
alpha-beta fold, elongated beta-sheet, walker A motif,
P-loop structural motif; 1.90A {Escherichia coli} SCOP:
c.37.1.10 PDB: 1p9n_A
Length = 174
Score = 27.1 bits (59), Expect = 1.8
Identities = 8/23 (34%), Positives = 10/23 (43%)
Query: 85 KRPPVVTIMGHVDHGKTTLLDTL 107
P++ GKTTLL L
Sbjct: 4 TMIPLLAFAAWSGTGKTTLLKKL 26
>2wvv_A Alpha-L-fucosidase; alpha-L-fucose, hydrolase, glycoside
hydrolase family 29; 1.73A {Bacteroides
thetaiotaomicron} PDB: 2xii_A* 2xib_A* 2wvv_B 2wvt_A*
2wvu_A* 2wvs_A*
Length = 450
Score = 27.4 bits (61), Expect = 1.9
Identities = 4/15 (26%), Positives = 8/15 (53%)
Query: 43 IIDIIQKSGMKYMVI 57
+ ++ G KY+ I
Sbjct: 83 WAKMAKEMGTKYVKI 97
>3gza_A Putative alpha-L-fucosidase; NP_812709.1, structural genomic
center for structural genomics, JCSG; HET: MSE EPE;
1.60A {Bacteroides thetaiotaomicron vpi-5482}
Length = 443
Score = 27.1 bits (60), Expect = 2.1
Identities = 3/20 (15%), Positives = 9/20 (45%)
Query: 38 YDFQVIIDIIQKSGMKYMVI 57
+ + + +G K+ V+
Sbjct: 59 LNTDQWVQAAKAAGCKFAVL 78
>1of1_A Thymidine kinase; transferase, antiviral drug, enzyme- prodrug
gene, DNA synthesis, ATP-binding; HET: SCT; 1.95A
{Herpes simplex virus} SCOP: c.37.1.1
Length = 376
Score = 27.1 bits (59), Expect = 2.3
Identities = 10/39 (25%), Positives = 11/39 (28%)
Query: 73 ERRPPADPSVLMKRPPVVTIMGHVDHGKTTLLDTLRNTS 111
+ P M V I G GKTT L
Sbjct: 35 QEATEVRPEQKMPTLLRVYIDGPHGMGKTTTTQLLVALG 73
>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 = 27.1 bits (61), Expect = 2.5
Identities = 7/11 (63%), Positives = 8/11 (72%)
Query: 92 IMGHVDHGKTT 102
I H+D GKTT
Sbjct: 15 ISAHIDAGKTT 25
>3ues_A Alpha-1,3/4-fucosidase; TIM barrel, hydrolase-hydrolase inhibitor
complex; HET: DFU; 1.60A {Bifidobacterium longum subsp}
PDB: 3mo4_A* 3uet_A*
Length = 478
Score = 26.9 bits (59), Expect = 2.7
Identities = 4/20 (20%), Positives = 9/20 (45%)
Query: 38 YDFQVIIDIIQKSGMKYMVI 57
D +D + GM +++
Sbjct: 62 VDVDQWMDALVAGGMAGVIL 81
>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 = 26.7 bits (60), Expect = 2.7
Identities = 7/11 (63%), Positives = 8/11 (72%)
Query: 92 IMGHVDHGKTT 102
I H+D GKTT
Sbjct: 17 IAAHIDAGKTT 27
>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein;
1.90A {Staphylococcus aureus}
Length = 693
Score = 26.7 bits (60), Expect = 2.8
Identities = 8/11 (72%), Positives = 9/11 (81%)
Query: 92 IMGHVDHGKTT 102
IM H+D GKTT
Sbjct: 15 IMAHIDAGKTT 25
>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 = 26.5 bits (59), Expect = 3.1
Identities = 7/15 (46%), Positives = 10/15 (66%)
Query: 90 VTIMGHVDHGKTTLL 104
G+VD GK+TL+
Sbjct: 27 FLTCGNVDDGKSTLI 41
>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR;
HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB:
1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*
Length = 262
Score = 26.2 bits (57), Expect = 4.1
Identities = 8/40 (20%), Positives = 12/40 (30%)
Query: 87 PPVVTIMGHVDHGKTTLLDTLRNTSVVKSEFGGITQHIGA 126
+V +G GKTTL + + G
Sbjct: 14 SMIVVFVGTAGSGKTTLTGEFGRYLEDNYKVAYVNLDTGV 53
>1xjc_A MOBB protein homolog; structural genomics, midwest center for
structural GEN PSI, protein structure initiative, MCSG;
2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10
Length = 169
Score = 25.8 bits (56), Expect = 4.6
Identities = 7/20 (35%), Positives = 12/20 (60%)
Query: 88 PVVTIMGHVDHGKTTLLDTL 107
V ++G+ GKTTL++
Sbjct: 5 NVWQVVGYKHSGKTTLMEKW 24
>2lfc_A Fumarate reductase, flavoprotein subunit; structural genomics,
northeast structural genomics consortiu PSI-biology; NMR
{Lactobacillus plantarum}
Length = 160
Score = 25.4 bits (56), Expect = 5.5
Identities = 5/16 (31%), Positives = 9/16 (56%)
Query: 2 TLKDLAKSMGVDCDHL 17
+L+ A+ G+ D L
Sbjct: 97 SLESAAEQAGIVVDEL 112
>3f1z_A Putative nucleic acid-binding lipoprotein; YP_001337197.1, S
genomics, joint center for structural genomics, JCSG;
2.46A {Klebsiella pneumoniae subsp}
Length = 133
Score = 25.5 bits (55), Expect = 5.8
Identities = 25/82 (30%), Positives = 38/82 (46%), Gaps = 14/82 (17%)
Query: 42 VIIDIIQKSGMK---YMVINPTNSVADDSNGKDVE------RRPPADPSVLMKRPPVVTI 92
VI+DI +KSG+ Y ++ ++ D+ N D AD L V TI
Sbjct: 57 VIVDIRRKSGIAGSYYFIV----TMRDEQNKTDKRLTFNFGSHNSADVEAL-SNGSVATI 111
Query: 93 MGHVDHGKTTLLDTLRNTSVVK 114
+G V + + + TL+N VVK
Sbjct: 112 VGQVHQVQDSTIPTLQNPKVVK 133
>1osn_A Thymidine kinase, VZV-TK; chickenpox, BVDU-MP, transferase; HET:
BVP ADP; 3.20A {Human herpesvirus 3} SCOP: c.37.1.1
Length = 341
Score = 25.5 bits (55), Expect = 6.7
Identities = 6/33 (18%), Positives = 12/33 (36%)
Query: 79 DPSVLMKRPPVVTIMGHVDHGKTTLLDTLRNTS 111
D + + + + G GKTT + +
Sbjct: 4 DKTDVKMGVLRIYLDGAYGIGKTTAAEEFLHHF 36
>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 = 25.7 bits (55), Expect = 7.4
Identities = 8/42 (19%), Positives = 16/42 (38%)
Query: 89 VVTIMGHVDHGKTTLLDTLRNTSVVKSEFGGITQHIGAFVGF 130
V++ G GK+ L+D + + + + GF
Sbjct: 69 AVSVAGAFRKGKSFLMDFMLRYMYNQESVDWVGDYNEPLTGF 110
>1p6x_A Thymidine kinase; P-loop, LID, transferase; HET: THM; 2.00A {Equid
herpesvirus 4} SCOP: c.37.1.1 PDB: 1p72_A* 1p73_A*
1p75_A*
Length = 334
Score = 25.5 bits (55), Expect = 8.6
Identities = 5/28 (17%), Positives = 11/28 (39%)
Query: 84 MKRPPVVTIMGHVDHGKTTLLDTLRNTS 111
M + + G GK+T + + +
Sbjct: 4 MVTIVRIYLDGVYGIGKSTTGRVMASAA 31
>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP
binding, structure function project, S2F, unknown
function; 2.00A {Escherichia coli} SCOP: c.37.1.10
d.237.1.1
Length = 318
Score = 25.2 bits (56), Expect = 9.8
Identities = 13/41 (31%), Positives = 19/41 (46%), Gaps = 6/41 (14%)
Query: 84 MKRPPVVTIMGHVDHGKTTLL------DTLRNTSVVKSEFG 118
M V + G + GKTTLL +V+++EFG
Sbjct: 1 MNPIAVTLLTGFLGAGKTTLLRHILNEQHGYKIAVIENEFG 41
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.320 0.137 0.401
Gapped
Lambda K H
0.267 0.0722 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,168,721
Number of extensions: 124000
Number of successful extensions: 428
Number of sequences better than 10.0: 1
Number of HSP's gapped: 428
Number of HSP's successfully gapped: 65
Length of query: 139
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 55
Effective length of database: 4,356,429
Effective search space: 239603595
Effective search space used: 239603595
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 52 (23.8 bits)