RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15201
(97 letters)
>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 = 127 bits (322), Expect = 1e-36
Identities = 30/78 (38%), Positives = 47/78 (60%)
Query: 13 GVNQLGVVINKLDTVSWSQDRFQEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENLTTPS 72
G++ L + +NK+D V WSQ RF+EI +KL +L GF + +I +VP SG +GE +
Sbjct: 170 GIHNLIIAMNKMDNVDWSQQRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKIE 229
Query: 73 QVPALTSWYSGPCLLDVI 90
+ WY+GP L+ +
Sbjct: 230 YTDEVRQWYNGPNLMSTL 247
>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay,
ribosomal protein,hydrolase; 9.50A {Saccharomyces
cerevisiae}
Length = 611
Score = 128 bits (323), Expect = 2e-36
Identities = 30/78 (38%), Positives = 47/78 (60%)
Query: 13 GVNQLGVVINKLDTVSWSQDRFQEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENLTTPS 72
G++ L + +NK+D V WSQ RF+EI +KL +L GF + +I +VP SG +GE +
Sbjct: 304 GIHNLIIAMNKMDNVDWSQQRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKIE 363
Query: 73 QVPALTSWYSGPCLLDVI 90
+ WY+GP L+ +
Sbjct: 364 YTDEVRQWYNGPNLMSTL 381
>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein
complex, translation regulation; 2.74A
{Schizosaccharomyces pombe}
Length = 592
Score = 119 bits (301), Expect = 2e-33
Identities = 34/79 (43%), Positives = 49/79 (62%), Gaps = 2/79 (2%)
Query: 13 GVNQLGVVINKLDTVSWSQDRFQEIVTKLGAFL-KQAGFRDSDIEYVPCSGLTGENLTTP 71
G++++ V +NKLD +SWS+DRFQEI + FL K GF+ S++ +VP S ++G NL
Sbjct: 314 GISEIVVSVNKLDLMSWSEDRFQEIKNIVSDFLIKMVGFKTSNVHFVPISAISGTNLIQK 373
Query: 72 SQVPALTSWYSGPCLLDVI 90
L WY GP LL +
Sbjct: 374 DS-SDLYKWYKGPTLLSAL 391
>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 = 115 bits (290), Expect = 2e-32
Identities = 25/80 (31%), Positives = 46/80 (57%), Gaps = 5/80 (6%)
Query: 13 GVNQLGVVINKLD--TVSWSQDRFQEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENLTT 70
G++QL V +NK+D + + R++EIV ++ F++ GF + + +VP +G+N+T
Sbjct: 143 GLDQLIVAVNKMDLTEPPYDEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITH 202
Query: 71 PSQVPALTSWYSGPCLLDVI 90
S WY+GP L + +
Sbjct: 203 KS---ENMKWYNGPTLEEYL 219
>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 = 108 bits (272), Expect = 1e-29
Identities = 34/82 (41%), Positives = 54/82 (65%), Gaps = 5/82 (6%)
Query: 13 GVNQLGVVINKLD--TVSWSQDRFQEIVTKLGAFLKQ-AGF-RDSDIEYVPCSGLTGENL 68
G+N L VVINK+D +V WS++R++E V KL FL++ AG+ +D++Y+P S TG+N+
Sbjct: 180 GINHLVVVINKMDEPSVQWSEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNV 239
Query: 69 TTPSQVPALTSWYSGPCLLDVI 90
++ WY GP LL+ +
Sbjct: 240 KDRVD-SSVCPWYQGPSLLEYL 260
>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 = 107 bits (270), Expect = 2e-29
Identities = 29/87 (33%), Positives = 43/87 (49%), Gaps = 9/87 (10%)
Query: 13 GVNQLGVVINKLDTVSWSQDRFQEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENLTTPS 72
GV QL V +NK+D+V W + RFQEIV + F+K+ G+ + +VP SG G+N+ +
Sbjct: 144 GVRQLIVAVNKMDSVKWDESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIEAT 203
Query: 73 Q---------VPALTSWYSGPCLLDVI 90
G LL+ I
Sbjct: 204 TNAPWYKGWEKETKAGVVKGKTLLEAI 230
>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 = 88.5 bits (220), Expect = 2e-22
Identities = 21/76 (27%), Positives = 38/76 (50%), Gaps = 3/76 (3%)
Query: 13 GVNQLGVVINKLDTVSWSQDRFQEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENLTTPS 72
G+ + V INK+D + + F+ I F + F+ + + +VP S L G+N+ S
Sbjct: 156 GIKHIVVAINKMDLNGFDERVFESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVVNKS 215
Query: 73 QVPALTSWYSGPCLLD 88
+ WY+G L++
Sbjct: 216 ---ERSPWYAGQSLME 228
>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA,
national P protein structural and functional analyses;
HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8
Length = 190
Score = 33.8 bits (78), Expect = 0.003
Identities = 12/50 (24%), Positives = 21/50 (42%), Gaps = 5/50 (10%)
Query: 19 VVINKLDTVSWSQDRFQEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENL 68
V +NKLD + Q+ + K + D ++P S G+N+
Sbjct: 127 VAVNKLDKIKNVQEVINFLAEKFE-----VPLSEIDKVFIPISAKFGDNI 171
>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP,
complex, structural G NPPSFA; HET: GDP; 2.35A
{Pyrococcus horikoshii}
Length = 357
Score = 31.7 bits (72), Expect = 0.018
Identities = 14/50 (28%), Positives = 22/50 (44%), Gaps = 11/50 (22%)
Query: 19 VVINKLDTVSWSQDRFQEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENL 68
VVINK+D E + +L F+K+ G + + S L G +
Sbjct: 285 VVINKIDVADE------ENIKRLEKFVKEKG-----LNPIKISALKGTGI 323
>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 = 31.1 bits (69), Expect = 0.033
Identities = 10/43 (23%), Positives = 11/43 (25%), Gaps = 22/43 (51%)
Query: 35 QEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENLTTPSQVPAL 77
Q + KL A LK L PAL
Sbjct: 20 QAL-KKLQASLK---------------------LYADDSAPAL 40
>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 = 30.9 bits (71), Expect = 0.043
Identities = 11/50 (22%), Positives = 20/50 (40%), Gaps = 8/50 (16%)
Query: 19 VVINKLDTVSWSQDRFQEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENL 68
+ +NK+D V + + L + + + VP S TG N+
Sbjct: 121 LAVNKVDNVQ-EKADLLPHLQFLASQMNFL-------DIVPISAETGLNV 162
>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation,
GTP-binding domain, maturation enzyme, oxidoreductase;
2.99A {Thermotoga neapolitana}
Length = 423
Score = 30.8 bits (70), Expect = 0.043
Identities = 9/50 (18%), Positives = 17/50 (34%), Gaps = 11/50 (22%)
Query: 19 VVINKLDTVSWSQDRFQEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENL 68
VV+NK+D + E +L + + + S L +
Sbjct: 145 VVVNKIDVLG-------EKAEELKGLYESRYE----AKVLLVSALQKKGF 183
>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA,
30S ribosome ASSE GTP-binding, nucleotide-binding; HET:
GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*
Length = 308
Score = 30.5 bits (70), Expect = 0.046
Identities = 15/50 (30%), Positives = 21/50 (42%), Gaps = 7/50 (14%)
Query: 19 VVINKLDTVSWSQDRFQEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENL 68
VVINK+D + ++ ++ K E VP S L G NL
Sbjct: 127 VVINKIDKIG-PAKNVLPLIDEIHK--KHPELT----EIVPISALKGANL 169
>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 = 30.5 bits (70), Expect = 0.051
Identities = 11/50 (22%), Positives = 16/50 (32%), Gaps = 11/50 (22%)
Query: 19 VVINKLDTVSWSQDRFQEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENL 68
+V NKLD +E + L +A E S L +
Sbjct: 122 LVGNKLDAA----KYPEEAMKAYHELLPEA-------EPRMLSALDERQV 160
>2vz8_A Fatty acid synthase; transferase, phosphopantetheine, multienzyme,
megasynthase, fatty acid synthesis; 3.2A {Sus scrofa}
PDB: 2vz9_A*
Length = 2512
Score = 28.3 bits (63), Expect = 0.34
Identities = 15/82 (18%), Positives = 29/82 (35%), Gaps = 14/82 (17%)
Query: 12 SGVNQLGVVINKLDTV--SWSQDRFQEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENLT 69
+G N G + T Q++ + + AG +EY+ G TG +
Sbjct: 249 AGTNTDGSKEQGV-TFPSGDVQEQL------IRSLYAPAGPDPESLEYIEAHG-TGTKVG 300
Query: 70 TPSQVPALTSWY----SGPCLL 87
P ++ + + P L+
Sbjct: 301 DPQELNGIVNALCATRREPLLI 322
>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 = 27.5 bits (62), Expect = 0.73
Identities = 14/64 (21%), Positives = 22/64 (34%), Gaps = 11/64 (17%)
Query: 5 DGGKSAVSGVNQLGVVINKLDTVSWSQDRFQEIVTKLGAFLKQAGFRDSDIEYVPCSGLT 64
G+++V VV NK D V + R+ E L + + S
Sbjct: 290 RRGRASV-------VVFNKWDLVVHREKRYDEFTKLFREKLYFIDY----SPLIFTSADK 338
Query: 65 GENL 68
G N+
Sbjct: 339 GWNI 342
>3a3d_A PBP4, penicillin-binding protein 4; DACB, hydrolase; 1.60A
{Haemophilus influenzae} PDB: 3a3e_A* 3a3f_A* 3a3i_A*
Length = 453
Score = 27.4 bits (60), Expect = 0.85
Identities = 13/58 (22%), Positives = 22/58 (37%), Gaps = 1/58 (1%)
Query: 34 FQEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENLTTPSQ-VPALTSWYSGPCLLDVI 90
FQ + + L++ G R + SGL+ NL P + L L ++
Sbjct: 307 FQLGTLAVKSILQKQGIRFGNSILADGSGLSRHNLVAPKTMLSVLEYIAKNEDKLHLM 364
>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 = 26.8 bits (60), Expect = 1.1
Identities = 13/56 (23%), Positives = 28/56 (50%), Gaps = 4/56 (7%)
Query: 13 GVNQLGVVINKLDTVSWSQDRFQEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENL 68
G++++ +V NK+D V + + +E ++ F+K G + +P S N+
Sbjct: 134 GIDKIIIVQNKIDLV--DEKQAEENYEQIKEFVK--GTIAENAPIIPISAHHEANI 185
>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus
stearothermophilus} PDB: 2lkd_A*
Length = 178
Score = 26.5 bits (59), Expect = 1.4
Identities = 13/50 (26%), Positives = 21/50 (42%), Gaps = 3/50 (6%)
Query: 19 VVINKLDTVSWSQDRFQEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENL 68
V INK+D + DR + + + ++ G D + S T E L
Sbjct: 112 VAINKMDKPEANPDRVMQELMEYNLVPEEWG---GDTIFCKLSAKTKEGL 158
>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine,
structural genomics, NPPSFA; HET: CIT; 1.70A
{Methanosarcina mazei}
Length = 370
Score = 26.4 bits (59), Expect = 1.5
Identities = 6/55 (10%), Positives = 15/55 (27%), Gaps = 4/55 (7%)
Query: 13 GVNQLGVVINKLDTVSWSQDRFQEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGEN 67
G + + + D+ E+ KL +D + + +
Sbjct: 111 GFKHGIIALTRSDST--HMHAIDELKAKLKVITSGTVLQDWEC--ISLNTNKSAK 161
>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 = 26.1 bits (58), Expect = 1.7
Identities = 8/34 (23%), Positives = 14/34 (41%), Gaps = 4/34 (11%)
Query: 35 QEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENL 68
E+ +L L + +D V S + GE +
Sbjct: 138 SEVSKELN--LVE--LKDRSWSIVASSAIKGEGI 167
>1w79_A D-alanyl-D-alanine carboxypeptidase; penicillin-binding,
peptidoglycan, transpeptidase, antibiotic resistance,
hydrolase; 1.8A {Actinomadura SP} SCOP: e.3.1.3 PDB:
1w8q_A 1w8y_A* 2vgj_A* 2vgk_A* 2xln_A* 2y5o_A* 2xdm_A*
2xk1_A* 2y4a_A* 2y55_A* 2y59_A* 2wke_A* 2y5r_A* 3zvt_A*
3zvw_A*
Length = 489
Score = 26.3 bits (57), Expect = 1.8
Identities = 12/49 (24%), Positives = 15/49 (30%), Gaps = 1/49 (2%)
Query: 43 AFLKQAGFRDSDIEYVPCSGLTGENLTTPSQ-VPALTSWYSGPCLLDVI 90
L G + + SGL+ NL T V L S P
Sbjct: 329 EALSGLGVDTAGLVLNDGSGLSRGNLVTADTVVDLLGQAGSAPWAQTWS 377
>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 = 26.0 bits (58), Expect = 1.9
Identities = 9/34 (26%), Positives = 12/34 (35%), Gaps = 4/34 (11%)
Query: 35 QEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENL 68
EI KLG L R + +G+ L
Sbjct: 120 AEITDKLG--LHS--LRHRNWYIQATCATSGDGL 149
>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 = 26.1 bits (58), Expect = 2.0
Identities = 11/34 (32%), Positives = 12/34 (35%), Gaps = 4/34 (11%)
Query: 35 QEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENL 68
EI L L +D C LTGE L
Sbjct: 136 AEISQFLK--LTS--IKDHQWHIQACCALTGEGL 165
>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 = 26.0 bits (58), Expect = 2.2
Identities = 12/56 (21%), Positives = 26/56 (46%), Gaps = 4/56 (7%)
Query: 13 GVNQLGVVINKLDTVSWSQDRFQEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENL 68
G + + NK++ V +++ E ++ F++ G + +P S L G N+
Sbjct: 136 GQKNIIIAQNKIELV--DKEKALENYRQIKEFIE--GTVAENAPIIPISALHGANI 187
>3ix1_A N-formyl-4-amino-5-aminomethyl-2-methylpyrimidine protein;
periplasmic
N-formyl-4-amino-5-aminomethyl-2-methylpyrimidin
protein; HET: NFM; 2.40A {Bacillus halodurans c-125}
Length = 302
Score = 25.8 bits (57), Expect = 2.3
Identities = 6/43 (13%), Positives = 15/43 (34%), Gaps = 1/43 (2%)
Query: 41 LGAFLKQAGFRDSDIEYVPCSGLTGENLTTPSQVPALTSWYSG 83
L ++ AG + + G ++ + + A+ Y
Sbjct: 121 LKTMVEAAGGDYEQVHLMDVGFELGASIVSG-RADAVVGTYIN 162
>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 = 25.7 bits (57), Expect = 2.4
Identities = 16/56 (28%), Positives = 26/56 (46%), Gaps = 4/56 (7%)
Query: 13 GVNQLGVVINKLDTVSWSQDRFQEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENL 68
GV L +V NK+D V S++ ++ F K G ++ +P S L N+
Sbjct: 128 GVKNLIIVQNKVDVV--SKEEALSQYRQIKQFTK--GTWAENVPIIPVSALHKINI 179
>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 = 25.6 bits (57), Expect = 2.4
Identities = 12/34 (35%), Positives = 14/34 (41%), Gaps = 4/34 (11%)
Query: 35 QEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENL 68
EI L L RD + CS LTGE +
Sbjct: 136 SEIAEGLN--LHT--IRDRVWQIQSCSALTGEGV 165
>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 = 25.7 bits (57), Expect = 2.4
Identities = 6/34 (17%), Positives = 11/34 (32%), Gaps = 4/34 (11%)
Query: 35 QEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENL 68
++ L L+ +D + GE L
Sbjct: 145 VKVSQLLC--LEN--IKDKPWHICASDAIKGEGL 174
>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 = 25.7 bits (57), Expect = 2.6
Identities = 8/34 (23%), Positives = 10/34 (29%), Gaps = 4/34 (11%)
Query: 35 QEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENL 68
E+ KLG L+ R G L
Sbjct: 149 SELTDKLG--LQH--LRSRTWYVQATCATQGTGL 178
>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 = 25.3 bits (56), Expect = 3.3
Identities = 11/34 (32%), Positives = 12/34 (35%), Gaps = 4/34 (11%)
Query: 35 QEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENL 68
EI L L +D C LTGE L
Sbjct: 141 AEISQFLK--LTS--IKDHQWHIQACCALTGEGL 170
>3q23_A Virion RNA polymerase; protein-DNA complex; HET: DNA G2P; 1.80A
{Enterobacteria phage N4} PDB: 3q0a_A* 3q22_A* 3q24_A*
3c3l_A 3c46_A 3c2p_A* 2po4_A
Length = 1118
Score = 25.5 bits (54), Expect = 3.9
Identities = 7/43 (16%), Positives = 15/43 (34%)
Query: 5 DGGKSAVSGVNQLGVVINKLDTVSWSQDRFQEIVTKLGAFLKQ 47
DG ++ + N+ SW + + + F+K
Sbjct: 963 DGMNIGLNDITDASRKANEAVYTSWQGNPIKNVYESYAKFMKN 1005
>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase,
nucleotide-binding; HET: GDP; 2.10A {Leishmania major}
Length = 189
Score = 24.9 bits (55), Expect = 4.0
Identities = 9/34 (26%), Positives = 13/34 (38%), Gaps = 4/34 (11%)
Query: 35 QEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENL 68
EI +LG + + V S TG+ L
Sbjct: 142 AEIAEQLG--VSS--IMNRTWTIVKSSSKTGDGL 171
>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA,
ribosomal; 10.80A {Bos taurus}
Length = 537
Score = 25.2 bits (56), Expect = 4.2
Identities = 13/50 (26%), Positives = 23/50 (46%), Gaps = 3/50 (6%)
Query: 19 VVINKLDTVSWSQDRFQEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENL 68
+ INK D ++ ++ + + G D++ V S LTGEN+
Sbjct: 109 LAINKCDKAEADPEKVKKELLAYDVVCEDYG---GDVQAVHVSALTGENM 155
>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 = 24.8 bits (54), Expect = 4.7
Identities = 9/34 (26%), Positives = 12/34 (35%), Gaps = 4/34 (11%)
Query: 35 QEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENL 68
EI KLG L R + +G+ L
Sbjct: 285 AEITDKLG--LHS--LRHRNWYIQATCATSGDGL 314
>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 = 24.4 bits (54), Expect = 6.0
Identities = 8/34 (23%), Positives = 11/34 (32%), Gaps = 4/34 (11%)
Query: 35 QEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENL 68
E+ LG L +D + S G L
Sbjct: 127 SEMANSLG--LPA--LKDRKWQIFKTSATKGTGL 156
>2eva_A TAK1 kinase - TAB1 chimera fusion protein; transferase/transferase
activator complex; HET: ADN; 2.00A {Homo sapiens}
Length = 307
Score = 24.6 bits (54), Expect = 6.7
Identities = 10/44 (22%), Positives = 17/44 (38%), Gaps = 5/44 (11%)
Query: 29 WSQD---R--FQEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGEN 67
WS+D R +EIV + ++ D ++Y L
Sbjct: 241 WSKDPSQRPSMEEIVKIMTHLMRYFPGADEPLQYPCQHSLPPGE 284
>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 = 24.5 bits (53), Expect = 6.7
Identities = 11/34 (32%), Positives = 15/34 (44%), Gaps = 4/34 (11%)
Query: 35 QEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENL 68
EI KLG L + RD + P +G+ L
Sbjct: 442 HEIQEKLG--LTR--IRDRNWYVQPSCATSGDGL 471
>3jsb_A Protein L, RNA-directed RNA polymerase; viral protein, vizier,
structural genomics, marseilles struc genomics program @
AFMB; 2.13A {Lymphocytic choriomeningitis virus}
Length = 204
Score = 24.5 bits (53), Expect = 7.7
Identities = 7/29 (24%), Positives = 15/29 (51%)
Query: 29 WSQDRFQEIVTKLGAFLKQAGFRDSDIEY 57
W+ +F++++ KL + Q + EY
Sbjct: 162 WANFKFRDLLFKLLEYSNQDEKVFEESEY 190
>1w5d_A Penicillin-binding protein; D-Ala-D-Ala-carboxypeptidase,
peptidoglycan, beta-lactam, hydrolase, peptidoglycan
synthesis; 2.1A {Bacillus subtilis} SCOP: e.3.1.3 PDB:
2j9p_A*
Length = 462
Score = 24.4 bits (52), Expect = 8.5
Identities = 6/49 (12%), Positives = 14/49 (28%), Gaps = 1/49 (2%)
Query: 43 AFLKQAGFRDSDIEYVPCSGLTGENLTTPSQ-VPALTSWYSGPCLLDVI 90
+ L + G + SG++ + + Q L +
Sbjct: 330 STLPEFGVDSKSLVLRDGSGISHIDAVSSDQLSQLLYDIQDQSWFSAYL 378
>1p9e_A Methyl parathion hydrolase; Zn containing; 2.40A {Pseudomonas SP}
SCOP: d.157.1.5
Length = 331
Score = 24.3 bits (53), Expect = 8.5
Identities = 7/27 (25%), Positives = 14/27 (51%)
Query: 32 DRFQEIVTKLGAFLKQAGFRDSDIEYV 58
F + +L A LK AG++ ++ +
Sbjct: 117 GLFGPTLGRLAANLKAAGYQPEQVDEI 143
>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 = 24.1 bits (53), Expect = 8.7
Identities = 10/34 (29%), Positives = 12/34 (35%), Gaps = 4/34 (11%)
Query: 35 QEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENL 68
I L L R CS +TGE+L
Sbjct: 138 NAIQEALE--LDS--IRSHHWRIQGCSAVTGEDL 167
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
0.317 0.136 0.417
Gapped
Lambda K H
0.267 0.0762 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,480,527
Number of extensions: 74181
Number of successful extensions: 243
Number of sequences better than 10.0: 1
Number of HSP's gapped: 229
Number of HSP's successfully gapped: 47
Length of query: 97
Length of database: 6,701,793
Length adjustment: 63
Effective length of query: 34
Effective length of database: 4,942,770
Effective search space: 168054180
Effective search space used: 168054180
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 (21.7 bits)
S2: 51 (23.4 bits)