RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1174
(182 letters)
>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 = 190 bits (486), Expect = 6e-60
Identities = 50/115 (43%), Positives = 67/115 (58%), Gaps = 14/115 (12%)
Query: 21 GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
G +GHV HGK+T+ KA++GV T EL R ITIK+G+A+A+I +C P C
Sbjct: 14 GMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRC-------PNCGRY 66
Query: 81 GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLI 135
S C + VR VSF+D PGH+ LM TML GA++MD A+L+I
Sbjct: 67 STSPVCP-------YCGHETEFVRRVSFIDAPGHEALMTTMLAGASLMDGAILVI 114
>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 = 188 bits (479), Expect = 7e-59
Identities = 49/115 (42%), Positives = 70/115 (60%), Gaps = 14/115 (12%)
Query: 21 GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
G +GHV HGK+++ KA++GV T R EL R I+I+LGYA+ +I KC + Y +
Sbjct: 12 GMVGHVDHGKTSLTKALTGVWTDRHSEELRRGISIRLGYADCEIRKCP-----QCGTYTT 66
Query: 81 GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLI 135
+ C + +R VSFVD PGH+ LMATML+GA++MD A+L+I
Sbjct: 67 KPRCPN---------CLAETEFLRRVSFVDSPGHETLMATMLSGASLMDGAILVI 112
>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 = 167 bits (426), Expect = 4e-51
Identities = 45/115 (39%), Positives = 68/115 (59%), Gaps = 20/115 (17%)
Query: 21 GTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYIS 80
G +GHV HGK+T+V+AI+G+ T + KLGYA I C++ C +P Y++
Sbjct: 12 GVVGHVDHGKTTLVQAITGIWTSK-----------KLGYAETNIGVCES--CKKPEAYVT 58
Query: 81 GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLI 135
S C + +R +SF+D PGH++LMATML+GAA+MD A+L++
Sbjct: 59 EPS-------CKSCGSDDEPKFLRRISFIDAPGHEVLMATMLSGAALMDGAILVV 106
>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 = 83.2 bits (206), Expect = 3e-19
Identities = 25/122 (20%), Positives = 50/122 (40%), Gaps = 41/122 (33%)
Query: 21 GTIGHVAHGKSTVVKAISGVQTV----RFKNELERNITIKLGYANAKIYKCDNEKCSRPA 76
G GH+ HGK+T+ K ++ + + + +R ITI +G++ +K +N
Sbjct: 23 GIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSA---FKLEN------- 72
Query: 77 CYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIG 136
++ VD PGH L+ +++ A ++D AL+++
Sbjct: 73 ---------------------------YRITLVDAPGHADLIRAVVSAADIIDLALIVVD 105
Query: 137 CD 138
Sbjct: 106 AK 107
Score = 44.7 bits (106), Expect = 5e-06
Identities = 10/28 (35%), Positives = 20/28 (71%)
Query: 146 IVDCPGHDILMATMLNGAAVMDAALLLI 173
+VD PGH L+ +++ A ++D AL+++
Sbjct: 77 LVDAPGHADLIRAVVSAADIIDLALIVV 104
>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine,
structural genomics, NPPSFA; HET: CIT; 1.70A
{Methanosarcina mazei}
Length = 370
Score = 69.1 bits (170), Expect = 2e-14
Identities = 17/130 (13%), Positives = 35/130 (26%), Gaps = 49/130 (37%)
Query: 21 GTIGHVAHGKSTVVKAISGV------------QTVRFKNELERNITIKLGYANAKIYKCD 68
G+ H H S +V S + +T N ++ + + N +
Sbjct: 2 GSSHHHHHHSSGLVPRGSHMANVAIIGTEKSGRTSLAANLGKKGTSSDITMYN---NDKE 58
Query: 69 NEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVM 128
R++ FVD + + +++ +
Sbjct: 59 G----------------------------------RNMVFVDAHSYPKTLKSLITALNIS 84
Query: 129 DAALLLIGCD 138
D A+L I
Sbjct: 85 DIAVLCIPPQ 94
Score = 41.8 bits (99), Expect = 5e-05
Identities = 6/28 (21%), Positives = 13/28 (46%)
Query: 146 IVDCPGHDILMATMLNGAAVMDAALLLI 173
VD + + +++ + D A+L I
Sbjct: 64 FVDAHSYPKTLKSLITALNISDIAVLCI 91
>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 = 59.6 bits (144), Expect = 5e-11
Identities = 35/127 (27%), Positives = 45/127 (35%), Gaps = 52/127 (40%)
Query: 21 GTIGHVAHGKSTVVKAISGVQTVRFKN-------------ELERNITIKLGYANAKI-YK 66
GTIGHV HGK+T+ AI+ V + E R ITI + + Y
Sbjct: 300 GTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITI----NTSHVEYD 355
Query: 67 CDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAA 126
RH + VDCPGH + M+ GAA
Sbjct: 356 TPT----------------------------------RHYAHVDCPGHADYVKNMITGAA 381
Query: 127 VMDAALL 133
MD A+L
Sbjct: 382 QMDGAIL 388
Score = 36.8 bits (85), Expect = 0.003
Identities = 14/25 (56%), Positives = 17/25 (68%)
Query: 147 VDCPGHDILMATMLNGAAVMDAALL 171
VDCPGH + M+ GAA MD A+L
Sbjct: 364 VDCPGHADYVKNMITGAAQMDGAIL 388
>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 = 58.0 bits (141), Expect = 1e-10
Identities = 31/127 (24%), Positives = 41/127 (32%), Gaps = 52/127 (40%)
Query: 21 GTIGHVAHGKSTVVKAISGVQTVRFKN-------------ELERNITIKLGYANAKI-YK 66
GTIGHV HGK+T+ AI+ + E R ITI A + Y
Sbjct: 7 GTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITI----NAAHVEYS 62
Query: 67 CDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAA 126
RH + DCPGH + M+ G A
Sbjct: 63 TAA----------------------------------RHYAHTDCPGHADYVKNMITGTA 88
Query: 127 VMDAALL 133
+D +L
Sbjct: 89 PLDGCIL 95
Score = 36.0 bits (84), Expect = 0.004
Identities = 10/25 (40%), Positives = 14/25 (56%)
Query: 147 VDCPGHDILMATMLNGAAVMDAALL 171
DCPGH + M+ G A +D +L
Sbjct: 71 TDCPGHADYVKNMITGTAPLDGCIL 95
>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 = 57.2 bits (139), Expect = 2e-10
Identities = 37/128 (28%), Positives = 46/128 (35%), Gaps = 53/128 (41%)
Query: 21 GTIGHVAHGKSTVVKAISGVQTVRFKN--------------ELERNITIKLGYANAKI-Y 65
GTIGHV HGK+T+ A++ V N E R ITI A + Y
Sbjct: 15 GTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITI----NTAHVEY 70
Query: 66 KCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGA 125
+ RH S VDCPGH + M+ GA
Sbjct: 71 ETAK----------------------------------RHYSHVDCPGHADYIKNMITGA 96
Query: 126 AVMDAALL 133
A MD A+L
Sbjct: 97 AQMDGAIL 104
Score = 35.6 bits (83), Expect = 0.005
Identities = 14/25 (56%), Positives = 17/25 (68%)
Query: 147 VDCPGHDILMATMLNGAAVMDAALL 171
VDCPGH + M+ GAA MD A+L
Sbjct: 80 VDCPGHADYIKNMITGAAQMDGAIL 104
>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 = 37.7 bits (88), Expect = 0.001
Identities = 29/119 (24%), Positives = 43/119 (36%), Gaps = 15/119 (12%)
Query: 23 IGHVAHGKSTVVKAI---SGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYI 79
IGHV GKST + G R + E+ + + D K R
Sbjct: 13 IGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERE---- 68
Query: 80 SGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCD 138
R D L T ++ V+ +D PGH + M+ G + D A+L+I
Sbjct: 69 --RGITIDI--ALWKFETPKY----QVTVIDAPGHRDFIKNMITGTSQADCAILIIAGG 119
Score = 34.6 bits (80), Expect = 0.011
Identities = 10/28 (35%), Positives = 17/28 (60%)
Query: 146 IVDCPGHDILMATMLNGAAVMDAALLLI 173
++D PGH + M+ G + D A+L+I
Sbjct: 89 VIDAPGHRDFIKNMITGTSQADCAILII 116
>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 = 35.7 bits (83), Expect = 0.005
Identities = 31/141 (21%), Positives = 46/141 (32%), Gaps = 65/141 (46%)
Query: 23 IGHVAHGKSTVV---------------------KAISGVQTVRF-------KNELERNIT 54
IGHV HGKST+V G ++ +F K E ER +T
Sbjct: 12 IGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVT 71
Query: 55 IKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGH 114
I L + + K + +D PGH
Sbjct: 72 INLTFMRFETKK-------------------------------------YFFTIIDAPGH 94
Query: 115 DILMATMLNGAAVMDAALLLI 135
+ M+ GA+ DAA+L++
Sbjct: 95 RDFVKNMITGASQADAAILVV 115
Score = 32.6 bits (75), Expect = 0.053
Identities = 12/28 (42%), Positives = 19/28 (67%)
Query: 146 IVDCPGHDILMATMLNGAAVMDAALLLI 173
I+D PGH + M+ GA+ DAA+L++
Sbjct: 88 IIDAPGHRDFVKNMITGASQADAAILVV 115
>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 = 35.4 bits (82), Expect = 0.007
Identities = 34/124 (27%), Positives = 44/124 (35%), Gaps = 31/124 (25%)
Query: 23 IGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGR 82
IGHV GKST + G NI G + + EK R A
Sbjct: 49 IGHVDAGKST----LGG------------NILFLTGMVDKRTM----EKIEREAKEAGKE 88
Query: 83 SNKD----DSFPCLRSS------CTGRFQLV-RHVSFVDCPGHDILMATMLNGAAVMDAA 131
S DS R F+ R S +D PGH + M+NGA+ D
Sbjct: 89 SWYLSWALDSTSEEREKGKTVEVGRAYFETEHRRFSLLDAPGHKGYVTNMINGASQADIG 148
Query: 132 LLLI 135
+L+I
Sbjct: 149 VLVI 152
Score = 32.7 bits (75), Expect = 0.058
Identities = 11/28 (39%), Positives = 18/28 (64%)
Query: 146 IVDCPGHDILMATMLNGAAVMDAALLLI 173
++D PGH + M+NGA+ D +L+I
Sbjct: 125 LLDAPGHKGYVTNMINGASQADIGVLVI 152
>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 = 35.0 bits (80), Expect = 0.010
Identities = 32/129 (24%), Positives = 48/129 (37%), Gaps = 36/129 (27%)
Query: 21 GTIGHVAHGKSTVV---------KAISGVQTVRF----KNELERNITIKLGYANAKIYKC 67
I HV HGKST+ + + RF K+E ER ITIK + A
Sbjct: 23 SVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIK---STA----- 74
Query: 68 DNEKCSRPACYIS-GRSNKDDSFPCLRSSCTGRFQLVRHVSFVDCPGHDILMATMLNGAA 126
IS D+ ++ G L ++ +D PGH + +
Sbjct: 75 -----------ISLYSEMSDEDVKEIKQKTDGNSFL---INLIDSPGHVDFSSEVTAALR 120
Query: 127 VMDAALLLI 135
V D AL+++
Sbjct: 121 VTDGALVVV 129
>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 = 33.4 bits (77), Expect = 0.035
Identities = 11/32 (34%), Positives = 16/32 (50%)
Query: 104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLI 135
R D PGH+ M GA+ D A++L+
Sbjct: 104 RKFIIADTPGHEQYTRNMATGASTCDLAIILV 135
Score = 33.0 bits (76), Expect = 0.040
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 146 IVDCPGHDILMATMLNGAAVMDAALLLI 173
I D PGH+ M GA+ D A++L+
Sbjct: 108 IADTPGHEQYTRNMATGASTCDLAIILV 135
>3i8b_A Xylulose kinase; strain ATCC 15703 / DSM 20083, 11200J,,
transferase, structural genomics, PSI-2; 2.00A
{Bifidobacterium adolescentis ATCC15703}
Length = 515
Score = 32.3 bits (74), Expect = 0.071
Identities = 12/32 (37%), Positives = 19/32 (59%)
Query: 107 SFVDCPGHDILMATMLNGAAVMDAALLLIGCD 138
F DC GH + +A +NG+ ++DA +G D
Sbjct: 316 GFADCTGHYLPLACTINGSRILDAGRAALGVD 347
Score = 27.7 bits (62), Expect = 2.2
Identities = 10/28 (35%), Positives = 17/28 (60%)
Query: 148 DCPGHDILMATMLNGAAVMDAALLLIGK 175
DC GH + +A +NG+ ++DA +G
Sbjct: 319 DCTGHYLPLACTINGSRILDAGRAALGV 346
>4fqd_A NIKO protein; beta/alpha inverse barrel, enolpyruvyl transferase,
fosfomyc binding, transferase; 2.50A {Streptomyces
tendae}
Length = 479
Score = 31.0 bits (71), Expect = 0.19
Identities = 13/67 (19%), Positives = 23/67 (34%), Gaps = 15/67 (22%)
Query: 105 HVSFVDCPGHDILMATMLN-GAA--VMDAALLLIGC---DNAAKTPEIVDCPGHDILMAT 158
+ +D + LM+ GA + + G + P++ D M T
Sbjct: 174 TIDMLDYTRNKALMSGPCYSGAVKTALLMGAVTHGTTTLQHPYLKPDVTD-------MVT 226
Query: 159 MLN--GA 163
+L GA
Sbjct: 227 VLRDLGA 233
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 29.5 bits (65), Expect = 0.33
Identities = 10/52 (19%), Positives = 16/52 (30%), Gaps = 31/52 (59%)
Query: 41 QTVRFKNELERNITIKLGYANAKIYKCDNEKCSRPACYISGRSNKDDSFPCL 92
Q ++ +L+ ++KL YA DS P L
Sbjct: 20 QALK---KLQA--SLKL-YA--------------D-----------DSAPAL 40
>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus
stearothermophilus} PDB: 2lkd_A*
Length = 178
Score = 29.5 bits (67), Expect = 0.39
Identities = 16/58 (27%), Positives = 25/58 (43%), Gaps = 14/58 (24%)
Query: 104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDN--------------AAKTPEIV 147
+ ++F+D PGH+ GA V D +L++ D+ AA P IV
Sbjct: 55 KKITFLDTPGHEAFTTMRARGAQVTDIVILVVAADDGVMPQTVEAINHAKAANVPIIV 112
>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein
complex, translation regulation; 2.74A
{Schizosaccharomyces pombe}
Length = 592
Score = 30.1 bits (68), Expect = 0.44
Identities = 10/42 (23%), Positives = 19/42 (45%), Gaps = 4/42 (9%)
Query: 104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCDNAAKTPE 145
+ D PGH ++ M+ GA+ D A+L++ +
Sbjct: 255 KIYEIGDAPGHRDFISGMIAGASSADFAVLVV----DSSQNN 292
Score = 29.3 bits (66), Expect = 0.64
Identities = 11/28 (39%), Positives = 18/28 (64%)
Query: 146 IVDCPGHDILMATMLNGAAVMDAALLLI 173
I D PGH ++ M+ GA+ D A+L++
Sbjct: 259 IGDAPGHRDFISGMIAGASSADFAVLVV 286
Score = 28.2 bits (63), Expect = 1.7
Identities = 7/10 (70%), Positives = 7/10 (70%)
Query: 23 IGHVAHGKST 32
GHV GKST
Sbjct: 183 TGHVDSGKST 192
>3r38_A UDP-N-acetylglucosamine 1-carboxyvinyltransferase; biosynthesis and
degradation of murein sacculus and peptidog infectious
diseases; 2.23A {Listeria monocytogenes} PDB: 3sg1_A*
Length = 454
Score = 29.4 bits (67), Expect = 0.58
Identities = 13/30 (43%), Positives = 16/30 (53%), Gaps = 9/30 (30%)
Query: 138 DNAAKTPEIVDCPGHDILMATMLN--GAAV 165
+N A+ PEIVD +A LN GA V
Sbjct: 208 ENVAREPEIVD-------LANFLNQMGARV 230
>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 = 29.4 bits (67), Expect = 0.69
Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 12/47 (25%)
Query: 23 IGHVAHGKSTVVKAI---SGVQTVR-FKN--------ELERNITIKL 57
I HV HGKST+ + +G + R + E ER IT+K+
Sbjct: 12 IAHVDHGKSTLADRLLEYTGAISEREKREQLLDTLDVERERGITVKM 58
>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane,
nucleotide-binding, translation; 2.80A {Escherichia
coli} PDB: 3deg_C*
Length = 599
Score = 29.4 bits (67), Expect = 0.73
Identities = 17/47 (36%), Positives = 21/47 (44%), Gaps = 12/47 (25%)
Query: 23 IGHVAHGKSTVVKAI---SGVQTVR-FKN--------ELERNITIKL 57
I H+ HGKST+ I G + R + E ER ITIK
Sbjct: 10 IAHIDHGKSTLSDRIIQICGGLSDREMEAQVLDSMDLERERGITIKA 56
>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay,
ribosomal protein,hydrolase; 9.50A {Saccharomyces
cerevisiae}
Length = 611
Score = 28.9 bits (65), Expect = 0.91
Identities = 9/32 (28%), Positives = 16/32 (50%)
Query: 104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLI 135
+ + VD PGH + + G + D A+L +
Sbjct: 245 ANFTIVDAPGHRDFVPNAIMGISQADMAILCV 276
Score = 28.5 bits (64), Expect = 1.4
Identities = 10/28 (35%), Positives = 15/28 (53%)
Query: 146 IVDCPGHDILMATMLNGAAVMDAALLLI 173
IVD PGH + + G + D A+L +
Sbjct: 249 IVDAPGHRDFVPNAIMGISQADMAILCV 276
Score = 28.1 bits (63), Expect = 1.6
Identities = 7/10 (70%), Positives = 8/10 (80%)
Query: 23 IGHVAHGKST 32
+GHV GKST
Sbjct: 173 LGHVDAGKST 182
>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 = 28.7 bits (65), Expect = 1.1
Identities = 10/35 (28%), Positives = 17/35 (48%)
Query: 104 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIGCD 138
+ + VD PGH + + G + D A+L + C
Sbjct: 111 ANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCS 145
Score = 28.0 bits (63), Expect = 1.7
Identities = 10/28 (35%), Positives = 15/28 (53%)
Query: 146 IVDCPGHDILMATMLNGAAVMDAALLLI 173
IVD PGH + + G + D A+L +
Sbjct: 115 IVDAPGHRDFVPNAIMGISQADMAILCV 142
Score = 28.0 bits (63), Expect = 1.9
Identities = 7/10 (70%), Positives = 8/10 (80%)
Query: 23 IGHVAHGKST 32
+GHV GKST
Sbjct: 39 LGHVDAGKST 48
>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 = 28.9 bits (64), Expect = 1.1
Identities = 31/209 (14%), Positives = 68/209 (32%), Gaps = 58/209 (27%)
Query: 20 PGTIGHVAHGKSTVVK------AISGVQTVR-FKNELERNITI--KLGYANAKIYKCDNE 70
PG + G + + AI+ + F + + IT+ +G + Y
Sbjct: 260 PGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAY----- 314
Query: 71 KCSRPACYISGRSNKD-----DSFPCLRSSCTG--RFQLVRHVSFVDC--PGHDILMATM 121
P + +D + P S + + Q+ +V+ + P + ++
Sbjct: 315 ----PNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISL 370
Query: 122 LNGA--AV----------MDAALLLI----GCDNA-----AKTPEI------VDCPGHDI 154
+NGA V ++ L G D + + + V P H
Sbjct: 371 VNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSH 430
Query: 155 LMATMLNGAAVMDAALLLIG-KFKVQDMK 182
L+ + +++ L+ F +D++
Sbjct: 431 LLV---PASDLINKDLVKNNVSFNAKDIQ 456
>3aja_A Putative uncharacterized protein; alpha-beta hydrolase, serine
esterase, cutinase, lipase, HYD; 2.90A {Mycobacterium
smegmatis}
Length = 302
Score = 28.4 bits (62), Expect = 1.2
Identities = 13/75 (17%), Positives = 23/75 (30%), Gaps = 3/75 (4%)
Query: 75 PACYISGRSNKDDSFPCLRSSCTGRFQLVRHVSFV--DCPGHDILMATMLNGAAVMDAAL 132
A + D S G V+ ++ + CP ++A GA +
Sbjct: 93 TAQF-HNPFAADKQMSYNDSRAEGMRTTVKAMTDMNDRCPLTSYVIAGFSQGAVIAGDIA 151
Query: 133 LLIGCDNAAKTPEIV 147
IG ++V
Sbjct: 152 SDIGNGRGPVDEDLV 166
>1ejd_A MURA, EPT, UDP-N-acetylglucosamine enolpyruvyltransferase;
inside-OUT alpha/beta barrel; 1.55A {Enterobacter
cloacae} SCOP: d.68.2.2 PDB: 1ejc_A 1eyn_A* 1ybg_A*
3kqa_A* 3lth_A* 3spb_A 3swq_A* 3upk_A* 1naw_A 1dlg_A
1ryw_A* 1q3g_A* 3su9_A* 3swi_A* 3v4t_A* 3v5v_A* 3swa_A*
1uae_A* 3kqj_A* 3kr6_A* ...
Length = 419
Score = 27.8 bits (63), Expect = 2.1
Identities = 17/42 (40%), Positives = 20/42 (47%), Gaps = 12/42 (28%)
Query: 127 VMDAALLLIGC---DNAAKTPEIVDCPGHDILMATMLN--GA 163
+M AA L G +NAA+ PEIVD A L GA
Sbjct: 169 IMSAATLAEGTTIIENAAREPEIVD-------TANFLVALGA 203
>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI,
protein structure initiative, midwest center for
structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga
maritima} SCOP: c.37.1.12
Length = 240
Score = 27.4 bits (62), Expect = 2.4
Identities = 7/25 (28%), Positives = 13/25 (52%), Gaps = 5/25 (20%)
Query: 29 GKSTVVKAISGVQ-----TVRFKNE 48
GK+T + AI+G+ + F +
Sbjct: 44 GKTTTLSAIAGLVRAQKGKIIFNGQ 68
>2yvw_A UDP-N-acetylglucosamine 1-carboxyvinyltransferase; peptidoglycan,
structu genomics, NPPSFA; HET: EPU; 1.81A {Aquifex
aeolicus} PDB: 3swg_A*
Length = 425
Score = 27.1 bits (61), Expect = 3.3
Identities = 8/28 (28%), Positives = 13/28 (46%), Gaps = 9/28 (32%)
Query: 138 DNAAKTPEIVDCPGHDILMATMLN--GA 163
+N A PE++D + +L GA
Sbjct: 191 ENIALEPEVMD-------LIEVLKKMGA 211
>2gp4_A 6-phosphogluconate dehydratase; N-terminal domain largely
alpha-helical, C-terminal domain M beta-sheet
(trefoil-like); 2.49A {Shewanella oneidensis} SCOP:
c.8.2.2 d.334.1.1
Length = 628
Score = 26.8 bits (60), Expect = 5.3
Identities = 15/48 (31%), Positives = 20/48 (41%), Gaps = 9/48 (18%)
Query: 119 ATMLNGAAVMDAALLLIGCDNAAKTPEIVDCPGHDILMATMLNGAAVM 166
A L+ + D ALLL CD K IV PG I + + +
Sbjct: 157 AVGLS-HNMFDGALLLGICD---K---IV--PGLLIGALSFGHLPMLF 195
>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR
complex, HMR, HML, TELO AAA+ domain, structural,
nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}
Length = 318
Score = 26.4 bits (57), Expect = 6.3
Identities = 12/143 (8%), Positives = 38/143 (26%), Gaps = 8/143 (5%)
Query: 9 SNWVSNEISSYPGTIGHVAHGKSTVVKAISGVQTVRFKNELERNITIKLGYANAKIYKCD 68
+ + + + K +V + + + + + + +A
Sbjct: 37 YDSLMSSQNKLFYITNADDSTKFQLVNDV--MDELITSSARKELPIFDYIHIDALELAGM 94
Query: 69 NEKCSRPACYISG-RSNKDDSFPCLRSSCTGRFQLVRHVSFV-----DCPGHDILMATML 122
+ + IS D S L T + + + + + + ++
Sbjct: 95 DALYEKIWFAISKENLCGDISLEALNFYITNVPKAKKRKTLILIQNPENLLSEKILQYFE 154
Query: 123 NGAAVMDAALLLIGCDNAAKTPE 145
+ ++ L +I T
Sbjct: 155 KWISSKNSKLSIICVGGHNVTIR 177
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
0.321 0.134 0.412
Gapped
Lambda K H
0.267 0.0781 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,713,044
Number of extensions: 153623
Number of successful extensions: 449
Number of sequences better than 10.0: 1
Number of HSP's gapped: 430
Number of HSP's successfully gapped: 63
Length of query: 182
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 94
Effective length of database: 4,244,745
Effective search space: 399006030
Effective search space used: 399006030
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 (21.9 bits)
S2: 54 (24.5 bits)