RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13818
(207 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 = 140 bits (354), Expect = 4e-40
Identities = 44/146 (30%), Positives = 70/146 (47%), Gaps = 30/146 (20%)
Query: 1 VGTKIEPTLCRADRLVGQVLGAVGALPKIFIELEISYHLLKRLLGVRMEGDKKGAKLEIS 60
VGTK++P L + D + G V+G G LP ++ L + HLL+R++G
Sbjct: 293 VGTKLDPYLTKGDLMAGNVVGKPGKLPPVWDSLRLEVHLLERVVGTE------------- 339
Query: 61 YHLLKRLLGVRMEGDKKGAKVQKLTRNEVLLVNIGSLSTGGRVLATKADLAKISLTNPVC 120
+ KV+ + R EVLL+N+G+ T G V D ++ L PVC
Sbjct: 340 ----------------QELKVEPIKRKEVLLLNVGTARTMGLVTGLGKDEIEVKLQIPVC 383
Query: 121 TEVNEKIALSRRVEKHWSLI-EGTVT 145
E +++A+SR++ W LI G +
Sbjct: 384 AEPGDRVAISRQIGSRWRLIGYGIIK 409
Score = 96.5 bits (241), Expect = 7e-24
Identities = 27/52 (51%), Positives = 39/52 (75%)
Query: 156 GNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQHEQIVKFVQ 207
NE CP+PQT EHL A++I+ K+III QNKI+LV + +A E + QI +F++
Sbjct: 116 ANEPCPRPQTREHLMALQIIGQKNIIIAQNKIELVDKEKALENYRQIKEFIE 167
>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 = 138 bits (349), Expect = 3e-39
Identities = 44/140 (31%), Positives = 72/140 (51%), Gaps = 29/140 (20%)
Query: 1 VGTKIEPTLCRADRLVGQVLGAVGALPKIFIELEISYHLLKRLLGVRMEGDKKGAKLEIS 60
VGT ++P L ++D L G V+G G LP I ++ I +LL R++G +
Sbjct: 291 VGTTLDPYLTKSDALTGSVVGLPGTLPPIREKITIRANLLDRVVGTK------------- 337
Query: 61 YHLLKRLLGVRMEGDKKGAKVQKLTRNEVLLVNIGSLSTGGRVLATKADLAKISLTNPVC 120
+ K++ L EVL++NIG+ +T G + + + D+A I L P+C
Sbjct: 338 ----------------EELKIEPLRTGEVLMLNIGTATTAGVITSARGDIADIKLKLPIC 381
Query: 121 TEVNEKIALSRRVEKHWSLI 140
E+ +++A+SRRV W LI
Sbjct: 382 AEIGDRVAISRRVGSRWRLI 401
Score = 95.4 bits (238), Expect = 2e-23
Identities = 33/52 (63%), Positives = 40/52 (76%)
Query: 156 GNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQHEQIVKFVQ 207
NE CPQPQT EHL A+EI+ + III+QNKIDLV E QA E +EQI +FV+
Sbjct: 114 ANEPCPQPQTKEHLMALEILGIDKIIIVQNKIDLVDEKQAEENYEQIKEFVK 165
>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 = 135 bits (343), Expect = 2e-38
Identities = 35/141 (24%), Positives = 64/141 (45%), Gaps = 30/141 (21%)
Query: 1 VGTKIEPTLCRADRLVGQVLGAVGALPKIFIELEISYHLLKRLLGVRMEGDKKGAKLEIS 60
+GT ++P+L +AD L+G ++ A + + I Y+LL+R++G
Sbjct: 285 IGTYLDPSLTKADNLLGSIITLADAEVPVLWNIRIKYNLLERVVGA-------------- 330
Query: 61 YHLLKRLLGVRMEGDKKGAKVQKLTRNEVLLVNIGSLSTGGRVLATKADLAKISLTNPVC 120
K+ KV + E L++++GS +T G V + K D ++ L PV
Sbjct: 331 ---------------KEMLKVDPIRAKETLMLSVGSSTTLGIVTSVKKDEIEVELRRPVA 375
Query: 121 TEVNE-KIALSRRVEKHWSLI 140
N + +SR++ W +I
Sbjct: 376 VWSNNIRTVISRQIAGRWRMI 396
Score = 96.2 bits (240), Expect = 1e-23
Identities = 24/52 (46%), Positives = 37/52 (71%)
Query: 156 GNESCPQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQHEQIVKFVQ 207
NE PQPQT EH A+ I+ +K++II+QNK+D+V + +A Q+ QI +F +
Sbjct: 108 ANEPFPQPQTREHFVALGIIGVKNLIIVQNKVDVVSKEEALSQYRQIKQFTK 159
>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 = 38.2 bits (89), Expect = 0.001
Identities = 9/47 (19%), Positives = 20/47 (42%), Gaps = 1/47 (2%)
Query: 161 PQPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQHEQIVKFVQ 207
P+ QT EH+ ++ + I+++ K D + + +Q
Sbjct: 110 PKTQTGEHMLILDHFNIPIIVVI-TKSDNAGTEEIKRTEMIMKSILQ 155
>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine,
structural genomics, NPPSFA; HET: CIT; 1.70A
{Methanosarcina mazei}
Length = 370
Score = 36.8 bits (86), Expect = 0.003
Identities = 8/32 (25%), Positives = 14/32 (43%)
Query: 161 PQPQTSEHLAAIEIMKLKHIIILQNKIDLVKE 192
T E + A++++ KH II + D
Sbjct: 96 LDAHTGECIIALDLLGFKHGIIALTRSDSTHM 127
>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 = 36.6 bits (84), Expect = 0.005
Identities = 45/253 (17%), Positives = 75/253 (29%), Gaps = 91/253 (35%)
Query: 11 RADRLVGQVLGAVGALPKIFIELEISYHLLKRLLGVRMEGDKKGAKLEISYHLLK----- 65
RAD G F L+I + L G +KG ++ +Y +
Sbjct: 1648 RADNHFKDTYG--------FSILDIVINNPVNL--TIHFGGEKGKRIRENYSAMIFETIV 1697
Query: 66 ---------------RLLGVRMEGDKKGAKVQKLTRN-------------EVL----LVN 93
+K + T+ E L L+
Sbjct: 1698 DGKLKTEKIFKEINEHSTSYTFRSEK---GLLSATQFTQPALTLMEKAAFEDLKSKGLIP 1754
Query: 94 I-----G-SL-------STGGRVLATKADLAKI----SLTNPVCTEVNEK-------IAL 129
G SL S V++ L ++ +T V +E IA+
Sbjct: 1755 ADATFAGHSLGEYAALASLAD-VMSI-ESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAI 1812
Query: 130 S-RRVEKHWSLIEGTVTTKVLSTRKRTG------NESCPQPQT--SEHLAAIEIMK--LK 178
+ RV S + + V KRTG N + Q + L A++ + L
Sbjct: 1813 NPGRVAA--SFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLN 1870
Query: 179 HIIILQNKIDLVK 191
I + KID+++
Sbjct: 1871 FIKL--QKIDIIE 1881
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 34.8 bits (79), Expect = 0.016
Identities = 31/237 (13%), Positives = 71/237 (29%), Gaps = 67/237 (28%)
Query: 10 CRADRLV----GQV----LGAVGALPKIFIELEISYHLLKRLLGVRMEGDKKG-AKLEIS 60
C + ++ ++ L + + L+ + + R + ++
Sbjct: 171 CLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSI 230
Query: 61 YHLLKRLLGVRMEGDKKGAKVQKLTRNEVLLV-------------NIGSLSTGGRVLATK 107
L+RLL + LLV N+ ++L T
Sbjct: 231 QAELRRLLKSKP-------------YENCLLVLLNVQNAKAWNAFNLSC-----KILLTT 272
Query: 108 ADLAKISLTNPVCTEVNEKIALSRRVEKHWSLIEG---TVTTKVLSTRK-------RTGN 157
+T+ + I+L +L ++ K L R T N
Sbjct: 273 RF---KQVTDFLSAATTTHISL---DHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTN 326
Query: 158 --------ESCPQ-PQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQHEQIVKF 205
ES T ++ + KL II ++ +++++ + + +++ F
Sbjct: 327 PRRLSIIAESIRDGLATWDNWKHVNCDKLTTII--ESSLNVLEPAEYRKMFDRLSVF 381
Score = 29.1 bits (64), Expect = 1.2
Identities = 26/196 (13%), Positives = 56/196 (28%), Gaps = 66/196 (33%)
Query: 25 ALPKIFIELEISYHLLKRLLGVRMEGDKKGAKLE-------ISYHLLKRLLGVRMEGDKK 77
AL + ++ Y++ K + D I +HL RM +
Sbjct: 444 ALHRSIVD---HYNIPKTF-----DSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRM 495
Query: 78 GAKVQKLTRNEVLLVNIGSLSTGGRVLATKADLAKISLTNPVCTEVNEKIALSRRVEKHW 137
+ ++ L KI + + ++++ +
Sbjct: 496 ------------VFLDFRFLE------------QKIRHDSTAWNASGSILNTLQQLKFYK 531
Query: 138 SLIEGTVTTKVLSTRKRTGNESCPQPQTSEHLAAIE--IMKLKHIIILQNKIDLVK---- 191
I N+ P+ + AI + K++ +I DL++
Sbjct: 532 PYI--------------CDND----PKYERLVNAILDFLPKIEENLICSKYTDLLRIALM 573
Query: 192 ---EGQANEQHEQIVK 204
E E H+Q+ +
Sbjct: 574 AEDEAIFEEAHKQVQR 589
>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with
oligonucleotide binding fold, central GTP binding
domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5
c.37.1.8
Length = 307
Score = 32.9 bits (76), Expect = 0.046
Identities = 11/51 (21%), Positives = 22/51 (43%), Gaps = 6/51 (11%)
Query: 159 SCPQPQTSEH-----LAAIEIMKLKHIIILQNKIDLVKEGQANEQHEQIVK 204
S QP S L +E ++ II + K+DL+++ + + +
Sbjct: 95 SAVQPSFSTALLDRFLVLVEANDIQPIICI-TKMDLIEDQDTEDTIQAYAE 144
>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 = 32.6 bits (75), Expect = 0.070
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 162 QPQTSEHLAAIEIMKLKHIIILQNKIDLV 190
Q QT H ++ +KHI++ NK+DL
Sbjct: 142 QTQTRRHSYIASLLGIKHIVVAINKMDLN 170
>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}
Length = 302
Score = 32.2 bits (74), Expect = 0.098
Identities = 13/49 (26%), Positives = 23/49 (46%), Gaps = 6/49 (12%)
Query: 159 SCPQPQTSEH-----LAAIEIMKLKHIIILQNKIDLVKEGQANEQHEQI 202
+ P+ + + L E K++ +I+ NKIDL+ E + E I
Sbjct: 88 TLKMPEFNNYLLDNMLVVYEYFKVEPVIVF-NKIDLLNEEEKKELERWI 135
>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural
genomics, BSGC structure funded by NIH, protein
structure initiative, PSI; HET: GDP; 2.80A {Thermotoga
maritima} SCOP: b.40.4.5 c.37.1.8
Length = 301
Score = 30.6 bits (70), Expect = 0.29
Identities = 12/49 (24%), Positives = 23/49 (46%), Gaps = 6/49 (12%)
Query: 159 SCPQPQTSEH-----LAAIEIMKLKHIIILQNKIDLVKEGQANEQHEQI 202
+ P+TS + L E +L+ ++++ NK+DL E + E
Sbjct: 93 TVKMPETSTYIIDKFLVLAEKNELETVMVI-NKMDLYDEDDLRKVRELE 140
>1xzp_A Probable tRNA modification GTPase TRME; GTP-binding, THF-binding,
hydrolase; 2.30A {Thermotoga maritima} SCOP: a.24.25.1
c.37.1.8 d.250.1.2 PDB: 1xzq_A* 1xzp_B 1xzq_B*
Length = 482
Score = 30.2 bits (69), Expect = 0.43
Identities = 10/44 (22%), Positives = 21/44 (47%)
Query: 162 QPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQHEQIVKF 205
P E +E +K K +++ NK+D+V++ E ++
Sbjct: 335 SPLDEEDRKILERIKNKRYLVVINKVDVVEKINEEEIKNKLGTD 378
>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding,
HYDR magnesium, metal-binding, nucleotide-binding,
potassium, TR processing; HET: GDP FON; 3.20A {Nostoc
SP}
Length = 462
Score = 29.8 bits (68), Expect = 0.57
Identities = 10/40 (25%), Positives = 18/40 (45%)
Query: 162 QPQTSEHLAAIEIMKLKHIIILQNKIDLVKEGQANEQHEQ 201
T+ E +K + +I++ NKIDLV++
Sbjct: 315 TGWTTGDQEIYEQVKHRPLILVMNKIDLVEKQLITSLEYP 354
>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 = 29.9 bits (67), Expect = 0.68
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 161 PQPQTSEHLAAIEIMKLKHIIILQNKIDLV 190
P PQT EH+ + + +II+ NK D+V
Sbjct: 396 PMPQTREHILLGRQVGVPYIIVFLNKCDMV 425
>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding,
hydrolase, nucleotide-binding; HET: GDP; 2.25A
{Salmonella typhimurium} PDB: 2ykr_W 4a2i_V
Length = 358
Score = 29.2 bits (66), Expect = 0.96
Identities = 14/49 (28%), Positives = 27/49 (55%), Gaps = 6/49 (12%)
Query: 159 SCPQPQTSEH-----LAAIEIMKLKHIIILQNKIDLVKEGQANEQHEQI 202
S P+ S + L E ++++ +I+L NKIDL+ + + +EQ+
Sbjct: 138 SAILPELSLNIIDRYLVGCETLQVEPLIVL-NKIDLLDDEGMDFVNEQM 185
>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 = 28.7 bits (65), Expect = 1.3
Identities = 11/30 (36%), Positives = 19/30 (63%)
Query: 161 PQPQTSEHLAAIEIMKLKHIIILQNKIDLV 190
P PQT EH+ + + +I++ NK+D+V
Sbjct: 112 PMPQTREHILLARQVGVPYIVVFMNKVDMV 141
>3llu_A RAS-related GTP-binding protein C; structural genomics consortium,
SGC, cytoplasm, nucleotide-binding, nucleus,
phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB:
2q3f_A*
Length = 196
Score = 28.4 bits (63), Expect = 1.4
Identities = 5/39 (12%), Positives = 14/39 (35%)
Query: 169 LAAIEIMKLKHIIILQNKIDLVKEGQANEQHEQIVKFVQ 207
A ++ + + +K+D + + E I +
Sbjct: 121 SKAYKVNPDMNFEVFIHKVDGLSDDHKIETQRDIHQRAN 159
>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 = 28.7 bits (65), Expect = 1.4
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 161 PQPQTSEHLAAIEIMKLKHIIILQNKIDLV 190
P PQT EHL + ++H+++ NK D V
Sbjct: 103 PMPQTREHLLLARQIGVEHVVVYVNKADAV 132
>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR,
protein transport; HET: GNP; 2.77A {Saccharomyces
cerevisiae}
Length = 307
Score = 28.0 bits (62), Expect = 1.9
Identities = 8/39 (20%), Positives = 18/39 (46%)
Query: 169 LAAIEIMKLKHIIILQNKIDLVKEGQANEQHEQIVKFVQ 207
+ I +L +K+DLV+ + E + ++K +
Sbjct: 107 KQLRKYSPDAKIFVLLHKMDLVQLDKREELFQIMMKNLS 145
>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics,
nysgxrc T18, GTPase, PSI, protein structure initiative;
HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8
Length = 282
Score = 27.7 bits (62), Expect = 2.8
Identities = 10/28 (35%), Positives = 15/28 (53%)
Query: 163 PQTSEHLAAIEIMKLKHIIILQNKIDLV 190
P +S + +I+K K I+L NK D
Sbjct: 36 PMSSRNPMIEDILKNKPRIMLLNKADKA 63
>2pl3_A Probable ATP-dependent RNA helicase DDX10; DEAD, structural
genomics, structural genomic consortium, SGC, hydrolase;
HET: ADP; 2.15A {Homo sapiens}
Length = 236
Score = 26.4 bits (59), Expect = 6.5
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 108 ADLAKISLTNPVCTEVNEK 126
DLA++SL NP V+EK
Sbjct: 217 KDLARLSLKNPEYVWVHEK 235
>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR,
protein transport; HET: GNP; 2.77A {Saccharomyces
cerevisiae}
Length = 331
Score = 26.2 bits (57), Expect = 7.9
Identities = 7/38 (18%), Positives = 17/38 (44%)
Query: 170 AAIEIMKLKHIIILQNKIDLVKEGQANEQHEQIVKFVQ 207
A ++ +I +L +K+D + E + I++
Sbjct: 99 YAYKVNPSINIEVLIHKVDGLSEDFKVDAQRDIMQRTG 136
>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria,
structural genomics, structural genomics consortium,
SGC, unknown function; HET: GDP; 2.01A {Plasmodium
falciparum}
Length = 228
Score = 25.9 bits (57), Expect = 9.0
Identities = 8/27 (29%), Positives = 14/27 (51%)
Query: 178 KHIIILQNKIDLVKEGQANEQHEQIVK 204
K I+I NKID + ++ ++K
Sbjct: 143 KSIVIGFNKIDKCNMDSLSIDNKLLIK 169
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 0.135 0.371
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: 2,946,498
Number of extensions: 169432
Number of successful extensions: 365
Number of sequences better than 10.0: 1
Number of HSP's gapped: 358
Number of HSP's successfully gapped: 36
Length of query: 207
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 118
Effective length of database: 4,216,824
Effective search space: 497585232
Effective search space used: 497585232
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: 55 (24.9 bits)