RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5461
(221 letters)
>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 = 132 bits (334), Expect = 8e-36
Identities = 34/116 (29%), Positives = 49/116 (42%), Gaps = 9/116 (7%)
Query: 58 VPVLCGSSYKNIGVQKLMDAIVDILPSPTERPALAMFQHFGDSLCARAFKVVHDKHRGAV 117
PV S + IGV L++ I++ LPSPTER A+ FKV D G V
Sbjct: 248 YPVALASGEREIGVLPLLELILEALPSPTERFGDGPP-------LAKVFKVQVDPFMGQV 300
Query: 118 TFFRIYSGAFKKGQKFYNIHLDQSEQITRLLLAEADDYKEVNEIQCGNIAAVTGLK 173
+ R+Y G K G + ++ L + D EV E + G + V +
Sbjct: 301 AYLRLYRGRLKPGDSLQS--EAGQVRLPHLYVPMGKDLLEVEEAEAGFVLGVPKAE 354
Score = 60.2 bits (147), Expect = 7e-11
Identities = 19/55 (34%), Positives = 26/55 (47%), Gaps = 7/55 (12%)
Query: 1 MDAIVDILPSPTERPALAMFQHFGDSLCARAFKVVHDKHRGAVTFFRIYSGAFKK 55
++ I++ LPSPTER A+ FKV D G V + R+Y G K
Sbjct: 265 LELILEALPSPTERFGDGPP-------LAKVFKVQVDPFMGQVAYLRLYRGRLKP 312
>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein;
1.90A {Staphylococcus aureus}
Length = 693
Score = 128 bits (325), Expect = 1e-34
Identities = 48/128 (37%), Positives = 71/128 (55%), Gaps = 12/128 (9%)
Query: 58 VPVLCGSSYKNIGVQKLMDAIVDILPSPTERPAL----------AMFQHFGDS--LCARA 105
PVLCG+++KN GVQ ++DA++D LPSP + + + DS A A
Sbjct: 254 YPVLCGTAFKNKGVQLMLDAVIDYLPSPLDVKPIIGHRASNPEEEVIAKADDSAEFAALA 313
Query: 106 FKVVHDKHRGAVTFFRIYSGAFKKGQKFYNIHLDQSEQITRLLLAEADDYKEVNEIQCGN 165
FKV+ D + G +TFFR+YSG G N + E++ RLL A+ +E++ + G+
Sbjct: 314 FKVMTDPYVGKLTFFRVYSGTMTSGSYVKNSTKGKRERVGRLLQMHANSRQEIDTVYSGD 373
Query: 166 IAAVTGLK 173
IAA GLK
Sbjct: 374 IAAAVGLK 381
Score = 56.3 bits (137), Expect = 1e-09
Identities = 23/67 (34%), Positives = 33/67 (49%), Gaps = 12/67 (17%)
Query: 1 MDAIVDILPSPTERPAL----------AMFQHFGDS--LCARAFKVVHDKHRGAVTFFRI 48
+DA++D LPSP + + + DS A AFKV+ D + G +TFFR+
Sbjct: 271 LDAVIDYLPSPLDVKPIIGHRASNPEEEVIAKADDSAEFAALAFKVMTDPYVGKLTFFRV 330
Query: 49 YSGAFKK 55
YSG
Sbjct: 331 YSGTMTS 337
>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 = 128 bits (325), Expect = 1e-34
Identities = 50/126 (39%), Positives = 71/126 (56%), Gaps = 10/126 (7%)
Query: 58 VPVLCGSSYKNIGVQKLMDAIVDILPSPTERPALA--------MFQHFGDS--LCARAFK 107
PV GS+ KN GVQ L+DA+VD LPSP + P + + H + L A AFK
Sbjct: 256 TPVFLGSALKNKGVQLLLDAVVDYLPSPLDIPPIKGTTPEGEVVEIHPDPNGPLAALAFK 315
Query: 108 VVHDKHRGAVTFFRIYSGAFKKGQKFYNIHLDQSEQITRLLLAEADDYKEVNEIQCGNIA 167
++ D + G +TF R+YSG G YN + E++ RLL A+ +EV E++ G++
Sbjct: 316 IMADPYVGRLTFIRVYSGTLTSGSYVYNTTKGRKERVARLLRMHANHREEVEELKAGDLG 375
Query: 168 AVTGLK 173
AV GLK
Sbjct: 376 AVVGLK 381
Score = 56.3 bits (137), Expect = 1e-09
Identities = 23/65 (35%), Positives = 34/65 (52%), Gaps = 10/65 (15%)
Query: 1 MDAIVDILPSPTERPALA--------MFQHFGDS--LCARAFKVVHDKHRGAVTFFRIYS 50
+DA+VD LPSP + P + + H + L A AFK++ D + G +TF R+YS
Sbjct: 273 LDAVVDYLPSPLDIPPIKGTTPEGEVVEIHPDPNGPLAALAFKIMADPYVGRLTFIRVYS 332
Query: 51 GAFKK 55
G
Sbjct: 333 GTLTS 337
>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 = 128 bits (324), Expect = 2e-34
Identities = 47/128 (36%), Positives = 69/128 (53%), Gaps = 12/128 (9%)
Query: 58 VPVLCGSSYKNIGVQKLMDAIVDILPSPTERPAL----------AMFQHFGDS--LCARA 105
+ V CGS++KN GVQ ++DA++D LPSP + PA+ +H D A A
Sbjct: 262 ILVTCGSAFKNKGVQAMLDAVIDYLPSPVDVPAINGILDDGKDTPAERHASDDEPFSALA 321
Query: 106 FKVVHDKHRGAVTFFRIYSGAFKKGQKFYNIHLDQSEQITRLLLAEADDYKEVNEIQCGN 165
FK+ D G +TFFR+YSG G N E+ R++ A+ +E+ E++ G+
Sbjct: 322 FKIATDPFVGNLTFFRVYSGVVNSGDTVLNSVKAARERFGRIVQMHANKREEIKEVRAGD 381
Query: 166 IAAVTGLK 173
IAA GLK
Sbjct: 382 IAAAIGLK 389
Score = 56.4 bits (137), Expect = 1e-09
Identities = 24/67 (35%), Positives = 33/67 (49%), Gaps = 12/67 (17%)
Query: 1 MDAIVDILPSPTERPAL----------AMFQHFGDS--LCARAFKVVHDKHRGAVTFFRI 48
+DA++D LPSP + PA+ +H D A AFK+ D G +TFFR+
Sbjct: 279 LDAVIDYLPSPVDVPAINGILDDGKDTPAERHASDDEPFSALAFKIATDPFVGNLTFFRV 338
Query: 49 YSGAFKK 55
YSG
Sbjct: 339 YSGVVNS 345
>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 = 68.5 bits (167), Expect = 1e-13
Identities = 30/155 (19%), Positives = 51/155 (32%), Gaps = 28/155 (18%)
Query: 53 FKKNHVPVLCGSSYKNIGV-QKLMDAIVDILPSPTERPALAMFQHFGDS----------- 100
+L K + L++ IV LPSP A Q +
Sbjct: 312 KDLEGKALLKVVMRKFLPAADALLEMIVLHLPSPVTAQAYRAEQLYEGPADDANCIAIKN 371
Query: 101 ------LCARAFKVVHDKHRG-AVTFFRIYSGAFKKGQKFYNIHLDQS---------EQI 144
L K+V +G F R+++G K GQK + + I
Sbjct: 372 CDPKADLMLYVSKMVPTSDKGRFYAFGRVFAGTVKSGQKVRIQGPNYVPGKKDDLFIKAI 431
Query: 145 TRLLLAEADDYKEVNEIQCGNIAAVTGLKRERGKD 179
R++L + +++ GNI + G+ + K
Sbjct: 432 QRVVLMMGRFVEPIDDCPAGNIIGLVGIDQFLLKT 466
Score = 36.5 bits (84), Expect = 0.006
Identities = 18/85 (21%), Positives = 28/85 (32%), Gaps = 18/85 (21%)
Query: 1 MDAIVDILPSPTERPALAMFQHFGDS-----------------LCARAFKVVHDKHRG-A 42
++ IV LPSP A Q + L K+V +G
Sbjct: 335 LEMIVLHLPSPVTAQAYRAEQLYEGPADDANCIAIKNCDPKADLMLYVSKMVPTSDKGRF 394
Query: 43 VTFFRIYSGAFKKNHVPVLCGSSYK 67
F R+++G K + G +Y
Sbjct: 395 YAFGRVFAGTVKSGQKVRIQGPNYV 419
>3tr5_A RF-3, peptide chain release factor 3; protein synthesis,
translation; HET: GDP; 2.11A {Coxiella burnetii}
Length = 528
Score = 54.3 bits (131), Expect = 7e-09
Identities = 32/106 (30%), Positives = 49/106 (46%), Gaps = 4/106 (3%)
Query: 59 PVLCGSSYKNIGVQKLMDAIVDILPSPTERPALA-MFQHFGDSLCARAFKVVHD---KHR 114
P+ GS+ N GV +L+DA V P P R + + + + FK+ + HR
Sbjct: 252 PIFFGSAINNFGVGELLDAFVKEAPPPQGRETNSRLVKPEEEKFSGFVFKIQANMDPGHR 311
Query: 115 GAVTFFRIYSGAFKKGQKFYNIHLDQSEQITRLLLAEADDYKEVNE 160
+ F RI SG ++KG K Y++ L + QI L A + E
Sbjct: 312 DRIAFLRIASGQYQKGMKAYHVRLKKEIQINNALTFMAGKRENAEE 357
Score = 35.1 bits (81), Expect = 0.015
Identities = 16/60 (26%), Positives = 26/60 (43%), Gaps = 4/60 (6%)
Query: 1 MDAIVDILPSPTERPALA-MFQHFGDSLCARAFKVVHD---KHRGAVTFFRIYSGAFKKN 56
+DA V P P R + + + + FK+ + HR + F RI SG ++K
Sbjct: 268 LDAFVKEAPPPQGRETNSRLVKPEEEKFSGFVFKIQANMDPGHRDRIAFLRIASGQYQKG 327
>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 = 53.6 bits (129), Expect = 9e-09
Identities = 31/106 (29%), Positives = 47/106 (44%), Gaps = 4/106 (3%)
Query: 59 PVLCGSSYKNIGVQKLMDAIVDILPSPTERPALA-MFQHFGDSLCARAFKVVHD---KHR 114
PV G++ N GV ++D +V+ P+P R + D FK+ + KHR
Sbjct: 253 PVFFGTALGNFGVDHMLDGLVEWAPAPMPRQTDTRTVEASEDKFTGFVFKIQANMDPKHR 312
Query: 115 GAVTFFRIYSGAFKKGQKFYNIHLDQSEQITRLLLAEADDYKEVNE 160
V F R+ SG ++KG K + + I+ L A D V E
Sbjct: 313 DRVAFMRVVSGKYEKGMKLRQVRTAKDVVISDALTFMAGDRSHVEE 358
Score = 35.1 bits (81), Expect = 0.015
Identities = 17/60 (28%), Positives = 27/60 (45%), Gaps = 4/60 (6%)
Query: 1 MDAIVDILPSPTERPALA-MFQHFGDSLCARAFKVVHD---KHRGAVTFFRIYSGAFKKN 56
+D +V+ P+P R + D FK+ + KHR V F R+ SG ++K
Sbjct: 269 LDGLVEWAPAPMPRQTDTRTVEASEDKFTGFVFKIQANMDPKHRDRVAFMRVVSGKYEKG 328
>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 = 47.5 bits (114), Expect = 1e-06
Identities = 24/68 (35%), Positives = 38/68 (55%), Gaps = 16/68 (23%)
Query: 69 IGVQKLMDAIVDILPSPT---ERPALAM-FQHFGDSLCARAFKVVHDKHRGAVTFFRIYS 124
IG++++++AIV+ +P P ++P A+ F DS +D +RGAV F RI+
Sbjct: 169 IGIEEILEAIVNRIPPPKGDPQKPLKALIF----DS--------YYDPYRGAVAFVRIFD 216
Query: 125 GAFKKGQK 132
G K G K
Sbjct: 217 GEVKPGDK 224
Score = 34.4 bits (80), Expect = 0.022
Identities = 20/60 (33%), Positives = 30/60 (50%), Gaps = 16/60 (26%)
Query: 1 MDAIVDILPSPT---ERPALAM-FQHFGDSLCARAFKVVHDKHRGAVTFFRIYSGAFKKN 56
++AIV+ +P P ++P A+ F DS +D +RGAV F RI+ G K
Sbjct: 175 LEAIVNRIPPPKGDPQKPLKALIF----DS--------YYDPYRGAVAFVRIFDGEVKPG 222
>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane,
nucleotide-binding, translation; 2.80A {Escherichia
coli} PDB: 3deg_C*
Length = 599
Score = 47.1 bits (113), Expect = 2e-06
Identities = 20/69 (28%), Positives = 31/69 (44%), Gaps = 16/69 (23%)
Query: 69 IGVQKLMDAIVDILPSPT---ERPALAM-FQHFGDSLCARAFKVVHDKHRGAVTFFRIYS 124
+GVQ +++ +V +P P E P A+ DS D + G V+ RI +
Sbjct: 167 VGVQDVLERLVRDIPPPEGDPEGPLQALII----DS--------WFDNYLGVVSLIRIKN 214
Query: 125 GAFKKGQKF 133
G +KG K
Sbjct: 215 GTLRKGDKV 223
Score = 34.0 bits (79), Expect = 0.029
Identities = 15/60 (25%), Positives = 24/60 (40%), Gaps = 16/60 (26%)
Query: 1 MDAIVDILPSPT---ERPALAM-FQHFGDSLCARAFKVVHDKHRGAVTFFRIYSGAFKKN 56
++ +V +P P E P A+ DS D + G V+ RI +G +K
Sbjct: 173 LERLVRDIPPPEGDPEGPLQALII----DS--------WFDNYLGVVSLIRIKNGTLRKG 220
>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 = 40.9 bits (96), Expect = 2e-04
Identities = 26/161 (16%), Positives = 58/161 (36%), Gaps = 22/161 (13%)
Query: 50 SGAFKKNHVPVLCGSSYKNIGVQKLMDAIVDILPSPT-ERPALAMFQHFGDSLCARAFKV 108
+ ++ S+ GV +L + I+ L + R + F+ D AF +
Sbjct: 155 QSTHNLKNSSIIPISAKTGFGVDELKNLIITTLNNAEIIRNTESYFKMPLD----HAFPI 210
Query: 109 VHDKHRGAVTFFRIYSGAFKKGQKFYNIHLDQSEQITRLLLAEADDYKEVNEIQCG-NIA 167
K G V I G K G + + ++ S ++ + + + V E + G +
Sbjct: 211 ---KGAGTVVTGTINKGIVKVGDELKVLPINMSTKVRSIQYFK----ESVMEAKAGDRVG 263
Query: 168 A-VTGLKR---ERGKDKRTRVIPKPTSVVQCSARWTLNLEV 204
+ G+ RG ++ + +Q + +++
Sbjct: 264 MAIQGVDAKQIYRG-----XILTSKDTKLQTVDKIVAKIKI 299
>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 = 37.7 bits (87), Expect = 0.003
Identities = 34/213 (15%), Positives = 61/213 (28%), Gaps = 74/213 (34%)
Query: 25 DSLCARAFKVVHDKHRGAVTFFRIYSGAFKKNHVPVLCGSSYKNIGVQKLMDAIVDILPS 84
D+ R + H G++ VP +S+ +L + ILP
Sbjct: 2 DAYSTRPLTLSH----GSLEH------VL---LVPT---ASF--FIASQLQEQFNKILPE 43
Query: 85 PTERPA-----------LAMFQHFGDSLCARAFKVVHDKHRGAVTFFRIYSGAFKKGQKF 133
PTE A + F + + +V G
Sbjct: 44 PTEGFAADDEPTTPAELVGKFLGY----VSS---LVEPSKVG------------------ 78
Query: 134 YNIHLDQSEQITRLLLAEAD-DYKEVNEIQCGNIAAVTGLKRERGKDKRTRVIPKPTSVV 192
Q +Q+ L L E + Y E N+I A L +E + K ++
Sbjct: 79 ------QFDQVLNLCLTEFENCYLEGNDIH----ALAAKLLQENDTT-----LVKTKELI 123
Query: 193 QC--SARWTLN--LEVGASSPIISKSKRRQNMI 221
+ +AR + ++S + +
Sbjct: 124 KNYITARIMAKRPFDKKSNSALFRAVGEGNAQL 156
Score = 28.9 bits (64), Expect = 1.6
Identities = 27/196 (13%), Positives = 51/196 (26%), Gaps = 61/196 (31%)
Query: 2 DAIVDILPSPTERPA-----------LAMFQHFGDSLCARAFKVVHDKHRGAV------T 44
+ ILP PTE A + F + + + V
Sbjct: 35 EQFNKILPEPTEGFAADDEPTTPAELVGKFLGY----VSSLVEPSKVGQFDQVLNLCLTE 90
Query: 45 FFRIYSGAFKKN--H--VPVLCGSSYKNIGVQKLM-----DAIVDILPSPTERPALAMFQ 95
F Y + N H L + + K + A + ++ A+F+
Sbjct: 91 FENCY---LEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFR 147
Query: 96 HFGDSLCARAFKVVHDKHRGAVTFFRIYSG------AFKKGQKFYNIH-------LDQSE 142
G I+ G F++ + Y + + S
Sbjct: 148 A------VGE---------GNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSA 192
Query: 143 QITRLLLAEADDYKEV 158
+ L+ D ++V
Sbjct: 193 ETLSELIRTTLDAEKV 208
Score = 28.1 bits (62), Expect = 3.4
Identities = 16/70 (22%), Positives = 25/70 (35%), Gaps = 18/70 (25%)
Query: 135 NIHLDQSEQITRLLLAEADDYKEVNEIQCGNIAAVTGL-------KRERGKDKRTRVIP- 186
N HL +Q+ + L N + G ++ GL K G D ++R IP
Sbjct: 357 NSHLPAGKQV-EISLVNGAK----NLVVSGPPQSLYGLNLTLRKAKAPSGLD-QSR-IPF 409
Query: 187 ---KPTSVVQ 193
K +
Sbjct: 410 SERKLKFSNR 419
>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 = 35.7 bits (83), Expect = 0.007
Identities = 29/167 (17%), Positives = 62/167 (37%), Gaps = 29/167 (17%)
Query: 58 VPVLCGSSYKNIGVQKLMDAIVDILPSP---TERPALAMFQHFGDSLCARAFKV-----V 109
VP++ S+ I + L++ I + + +P + + M L R+F V
Sbjct: 166 VPIIPVSALHKINIDSLIEGIEEYIKTPYRDLSQKPV-M-------LVIRSFDVNKPGTQ 217
Query: 110 HDKHRGAVTFFRIYSGAFKKGQKF---YNIHLDQSEQI------TRLLLAEADDYKEVNE 160
++ +G V I G FK Q+ + +++ ++ T++ D +E E
Sbjct: 218 FNELKGGVIGGSIIQGLFKVDQEIKVLPGLRVEKQGKVSYEPIFTKISSIRFGD-EEFKE 276
Query: 161 IQCG-NIAAVTGLKR--ERGKDKRTRVIPKPTSVVQCSARWTLNLEV 204
+ G +A T L + + +I + V + +
Sbjct: 277 AKPGGLVAIGTYLDPSLTKADNLLGSIITLADAEVPVLWNIRIKYNL 323
>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 = 32.9 bits (74), Expect = 0.081
Identities = 20/172 (11%), Positives = 55/172 (31%), Gaps = 32/172 (18%)
Query: 4 IVDILPSPTERPALAMFQHFGDSLCARAFKVVHDKHRG---AVTFFRIYSGAFKKNHVPV 60
+ + T ++ + L R + + ++ ++ +
Sbjct: 291 LDHHSMTLTPDEVKSLLLKY---LDCRPQDLPREVLTTNPRRLSII----AESIRDGLAT 343
Query: 61 LCGSSYKNIGVQKL---MDAIVDILPSPTERP---ALAMFQHFGDS------LCARAFKV 108
++K++ KL +++ +++L R L++F + L F V
Sbjct: 344 W--DNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPP--SAHIPTILLSLIWFDV 399
Query: 109 VHDKHRGAVTFFRIYSGAFKKGQKF-YNIHLDQSEQITRLLLAEADDYKEVN 159
+ V YS K+ ++ +I I L + ++ ++
Sbjct: 400 IKSDVMVVVNKLHKYSLVEKQPKESTISIP-----SIYLELKVKLENEYALH 446
Score = 26.7 bits (58), Expect = 7.3
Identities = 17/117 (14%), Positives = 35/117 (29%), Gaps = 42/117 (35%)
Query: 22 HFGDSLCARA--FKVVHDKHRGAVTFFRIYSGAFKKNHVPVLCGSSYKNIGVQKLMDAIV 79
H + A + + Y N P ++L++AI+
Sbjct: 509 HDSTAWNASGSILNTLQQ--------LKFYKPYICDND-PKY----------ERLVNAIL 549
Query: 80 DILPSPTERPALAMFQHFGDSLCARAFKVVH----DKHRGAVTFFRIYSGAFKKGQK 132
D LP E + +C++ ++ + I+ A K+ Q+
Sbjct: 550 DFLPKIEE-----------NLICSKYTDLLRIALMAEDEA------IFEEAHKQVQR 589
>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 = 32.2 bits (74), Expect = 0.10
Identities = 32/154 (20%), Positives = 52/154 (33%), Gaps = 29/154 (18%)
Query: 58 VPVLCGSSYKNIGVQKLMDAIVDILPSP---TERPALAMFQHFGDSLCARAFKV-----V 109
P++ S+ + L+ AI D +P+P +P M L R+F V
Sbjct: 174 APIIPISALHGANIDVLVKAIEDFIPTPKRDPNKPPK-M-------LVLRSFDVNKPGTP 225
Query: 110 HDKHRGAVTFFRIYSGAFKKGQ---------KFYNIHLDQSEQITRLLLAEADDYKEVNE 160
+K G V I G K G + + T ++ +A + V E
Sbjct: 226 PEKLVGGVLDGSIVQGKLKVGDEIEIRPGVPYEEHGRIKYEPITTEIVSLQAGG-QFVEE 284
Query: 161 IQCG-NIAAVTGLKR--ERGKDKRTRVIPKPTSV 191
G + T L +G V+ KP +
Sbjct: 285 AYPGGLVGVGTKLDPYLTKGDLMAGNVVGKPGKL 318
>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 = 31.5 bits (70), Expect = 0.12
Identities = 8/27 (29%), Positives = 14/27 (51%), Gaps = 3/27 (11%)
Query: 67 KNIGVQKLMDAIVDILPSPTERPALAM 93
K ++KL ++ L + PALA+
Sbjct: 19 KQ-ALKKLQASLK--LYADDSAPALAI 42
Score = 27.6 bits (60), Expect = 2.6
Identities = 5/12 (41%), Positives = 7/12 (58%)
Query: 8 LPSPTERPALAM 19
L + PALA+
Sbjct: 31 LYADDSAPALAI 42
>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 = 31.9 bits (73), Expect = 0.13
Identities = 27/154 (17%), Positives = 50/154 (32%), Gaps = 29/154 (18%)
Query: 58 VPVLCGSSYKNIGVQKLMDAIVDILPSP---TERPALAMFQHFGDSLCARAFKV-----V 109
P++ S++ + L+ AI D +P+P + M AR+F +
Sbjct: 172 APIIPISAHHEANIDVLLKAIQDFIPTPKRDPDATPR-M-------YVARSFDINKPGTE 223
Query: 110 HDKHRGAVTFFRIYSGAFKKGQKF---------YNIHLDQSEQITRLLLAEADDYKEVNE 160
+G V I G FK G + T+++ A + + +
Sbjct: 224 IKDLKGGVLGGAIIQGVFKVGDEIEIRPGIKVTEGNKTFWKPLTTKIVSLAAGN-TILRK 282
Query: 161 IQCG-NIAAVTGLKR--ERGKDKRTRVIPKPTSV 191
G I T L + V+ P ++
Sbjct: 283 AHPGGLIGVGTTLDPYLTKSDALTGSVVGLPGTL 316
>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron
transport, GTPase, transmembrane, potassium; HET: GGM;
1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A*
3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A*
Length = 272
Score = 31.1 bits (71), Expect = 0.21
Identities = 9/37 (24%), Positives = 16/37 (43%)
Query: 58 VPVLCGSSYKNIGVQKLMDAIVDILPSPTERPALAMF 94
VPV+ S+ K GV +++ S A ++
Sbjct: 138 VPVVATSALKQTGVDQVVKKAAHTTTSTVGDLAFPIY 174
>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP,
complex, structural G NPPSFA; HET: GDP; 2.35A
{Pyrococcus horikoshii}
Length = 357
Score = 30.2 bits (68), Expect = 0.57
Identities = 8/39 (20%), Positives = 17/39 (43%)
Query: 52 AFKKNHVPVLCGSSYKNIGVQKLMDAIVDILPSPTERPA 90
K+ + + S+ K G+ + + I+ L E+ A
Sbjct: 304 FVKEKGLNPIKISALKGTGIDLVKEEIIKTLRPLAEKVA 342
>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small GTPase,
G protein, GDI; HET: GDP; 1.50A {Thermotoga maritima}
PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A
Length = 258
Score = 29.2 bits (66), Expect = 0.88
Identities = 10/44 (22%), Positives = 22/44 (50%), Gaps = 2/44 (4%)
Query: 58 VPVLCGSSYKNIGVQKLMDAIVDILPSPTERPALAMFQHFGDSL 101
+PV+ SS G+++L + IV+ T + + +G+ +
Sbjct: 141 IPVVFTSSVTGEGLEELKEKIVEYAQKNTILHRMIL--DYGEKV 182
>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle,
G-protein, prokaryote, GTP-BIND nucleotide-binding,
metal transport; 2.70A {Pyrococcus furiosus}
Length = 271
Score = 29.2 bits (66), Expect = 0.96
Identities = 8/44 (18%), Positives = 18/44 (40%), Gaps = 2/44 (4%)
Query: 58 VPVLCGSSYKNIGVQKLMDAIVDILPSPTERPALAMFQHFGDSL 101
VPV+ ++ K GV++L I + + + + +
Sbjct: 140 VPVIPTNAKKGEGVEELKRMIALMAEGKVTTNPIIP--RYDEDI 181
>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation,
GTP-binding domain, maturation enzyme, oxidoreductase;
2.99A {Thermotoga neapolitana}
Length = 423
Score = 28.8 bits (65), Expect = 1.6
Identities = 10/43 (23%), Positives = 18/43 (41%), Gaps = 3/43 (6%)
Query: 47 RIYSGAFKKNHVPVLCGSSYKNIGVQKLMDAIVDILPSPTERP 89
+Y ++ + V S+ + G + I +ILP E P
Sbjct: 162 GLYESRYEAKVLLV---SALQKKGFDDIGKTISEILPGDEEIP 201
>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake,
cell inner membrane, cell GTP-binding, ION transport,
membrane; 2.50A {Legionella pneumophila}
Length = 256
Score = 28.4 bits (64), Expect = 1.8
Identities = 6/29 (20%), Positives = 13/29 (44%)
Query: 58 VPVLCGSSYKNIGVQKLMDAIVDILPSPT 86
V+ ++KNIG+ L +++
Sbjct: 141 CSVIPIQAHKNIGIPALQQSLLHCSQKIK 169
>3i8s_A Ferrous iron transport protein B; GTPase, GPCR, iron uptake, FEO,
cell inner membrane, cell ME GTP-binding, ION transport,
membrane; 1.80A {Escherichia coli} PDB: 3i8x_A* 3i92_A*
3hyr_A 3hyt_A* 2wic_A* 2wib_A* 2wia_A*
Length = 274
Score = 28.1 bits (63), Expect = 2.1
Identities = 9/44 (20%), Positives = 15/44 (34%), Gaps = 5/44 (11%)
Query: 58 VPVLCGSSYKNIGVQKLMDAIVDILPSPTERPALAMFQHFGDSL 101
PV+ S + G++ L AI + H+ L
Sbjct: 143 CPVIPLVSTRGRGIEALKLAIDRYKANENVEL-----VHYAQPL 181
>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane
G-proteins, cell membrane, ION transport, transmembrane;
HET: GDP; 2.20A {Methanocaldococcus jannaschii}
Length = 188
Score = 27.5 bits (62), Expect = 2.4
Identities = 8/28 (28%), Positives = 15/28 (53%)
Query: 58 VPVLCGSSYKNIGVQKLMDAIVDILPSP 85
V V+ S+ K +G+++L AI +
Sbjct: 143 VKVVPLSAAKKMGIEELKKAISIAVKDK 170
>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 = 27.4 bits (61), Expect = 3.2
Identities = 6/30 (20%), Positives = 13/30 (43%)
Query: 53 FKKNHVPVLCGSSYKNIGVQKLMDAIVDIL 82
KN + S+ +GV++ ++L
Sbjct: 174 NVKNPIKFSSFSTLTGVGVEQAKITACELL 203
>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell
membrane, ION transport, transmembrane; HET: GNP; 1.90A
{Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*
Length = 165
Score = 27.1 bits (61), Expect = 3.5
Identities = 8/23 (34%), Positives = 14/23 (60%)
Query: 58 VPVLCGSSYKNIGVQKLMDAIVD 80
V V+ S+ K +G+++L AI
Sbjct: 139 VKVVPLSAAKKMGIEELKKAISI 161
>2i0z_A NAD(FAD)-utilizing dehydrogenases; structural genomics, PSI-2,
protein structure initiative, midwest center for
structural genomics, MCSG; HET: FAD; 1.84A {Bacillus
cereus} SCOP: c.3.1.8 e.74.1.1
Length = 447
Score = 26.7 bits (60), Expect = 6.8
Identities = 10/58 (17%), Positives = 24/58 (41%), Gaps = 6/58 (10%)
Query: 139 DQSEQITRLLLAEADDYKEVNEIQCGNIAAVTGLKRERGKDKRTRVIPKPTSVVQCSA 196
++++ + LL D V +I+ V ++ E + VI + V++ +
Sbjct: 131 NKAQSVVDALLTRLKDLG-V-KIRTN--TPVETIEYE--NGQTKAVILQTGEVLETNH 182
>2gqf_A Hypothetical protein HI0933; structural genomics, FAD-utilizing
protein, flavoprotein, PS protein structure initiative;
HET: FAD; 2.70A {Haemophilus influenzae} SCOP: c.3.1.8
e.74.1.1
Length = 401
Score = 26.7 bits (60), Expect = 6.9
Identities = 14/58 (24%), Positives = 28/58 (48%), Gaps = 4/58 (6%)
Query: 139 DQSEQITRLLLAEADDYKEVNEIQCGNIAAVTGLKRERGKDKRTRVIPKPTSVVQCSA 196
+ +EQI +L +E D Y +I + V+ ++R + +K V+ ++ QC
Sbjct: 106 EGAEQIVEMLKSECDKYG-A-KILLR--SEVSQVERIQNDEKVRFVLQVNSTQWQCKN 159
>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 = 26.1 bits (58), Expect = 7.4
Identities = 3/31 (9%), Positives = 13/31 (41%)
Query: 53 FKKNHVPVLCGSSYKNIGVQKLMDAIVDILP 83
+ + S+ +++L + I +++
Sbjct: 153 LSEIDKVFIPISAKFGDNIERLKNRIFEVIR 183
>2jc4_A Exodeoxyribonuclease III; hydrolase, repair phosphodiesterase, DNA
repair, exonuclease, endonuclease; HET: 1PE; 1.90A
{Neisseria meningitidis}
Length = 256
Score = 25.9 bits (58), Expect = 9.5
Identities = 12/54 (22%), Positives = 15/54 (27%), Gaps = 8/54 (14%)
Query: 6 DILPSPTERPALAMFQHFG--DSLCARAFKVVHDKHRGAVTFFRIYSGAFKKNH 57
I S ER G DSL R T+F F++
Sbjct: 165 KIHCSSVERQWFQNLLDLGLTDSL--RQV----HPEGAFYTWFDYRGAMFQRKL 212
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
0.324 0.137 0.408
Gapped
Lambda K H
0.267 0.0688 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,380,038
Number of extensions: 198538
Number of successful extensions: 502
Number of sequences better than 10.0: 1
Number of HSP's gapped: 482
Number of HSP's successfully gapped: 45
Length of query: 221
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 131
Effective length of database: 4,188,903
Effective search space: 548746293
Effective search space used: 548746293
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 55 (25.0 bits)