RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3925
(210 letters)
>3jui_A Translation initiation factor EIF-2B subunit EPSI; heat repeat,
guanine nucleotide exchange factor, disease mutation,
leukodystrophy; 2.00A {Homo sapiens}
Length = 182
Score = 97.8 bits (243), Expect = 6e-26
Identities = 27/134 (20%), Positives = 64/134 (47%), Gaps = 7/134 (5%)
Query: 82 TVLQVLINIWSTVMAQVEWNKKEELVA----EQALKHLKQFTPLFGAFTDTAPRAELALM 137
++ +V+ + V+ L + L LK ++P+F + L +
Sbjct: 49 SLKEVMQVLSHVVLEFPLQQMDSPLDSSRYCALLLPLLKAWSPVFRNYIKR-AADHLEAL 107
Query: 138 LKVQEFCYENMNLMRVFQKIILLFYKTDVISEEVILKWYKEGHSI--KGKIMFLEQMKKF 195
+++F E+ L K+++ FY+ ++++ E IL W+ + + ++ +Q+++F
Sbjct: 108 AAIEDFFLEHEALGISMAKVLMAFYQLEILAGETILSWFSQRDTTDKGQQLRKNQQLQRF 167
Query: 196 VEWLQSAEEGMSSE 209
++WL+ AEE S +
Sbjct: 168 IQWLKEAEEESSED 181
>1paq_A Translation initiation factor EIF-2B epsilon subunit; heat repeat,
AA motif; 2.30A {Saccharomyces cerevisiae} SCOP:
a.118.1.14
Length = 189
Score = 90.8 bits (225), Expect = 4e-23
Identities = 28/127 (22%), Positives = 51/127 (40%), Gaps = 5/127 (3%)
Query: 82 TVLQVLINIWSTVMAQVEWNKKEELVA--EQALKHLKQFTPLFGAFTDTAPRAELALMLK 139
T +V I + ++ +V + + + +K Q+ LF + LM
Sbjct: 57 TYHEVRIATITALLRRVYHFIATQTLGPKDAVVKVFNQWGLLFKRQAFD-EEEYIDLMNI 115
Query: 140 VQEFCYENMN--LMRVFQKIILLFYKTDVISEEVILKWYKEGHSIKGKIMFLEQMKKFVE 197
+ E E + ++ Y D+I E+VI KW+ + + K+VE
Sbjct: 116 IMEKIVEQSFDKPDLILFSALVSLYDNDIIEEDVIYKWWDNVSTDPRYDEVKKLTVKWVE 175
Query: 198 WLQSAEE 204
WLQ+A+E
Sbjct: 176 WLQNADE 182
>3d3m_A Eukaryotic translation initiation factor 4 gamma 2; heat repeat
domain, structural genomics, PSI, protein structure
initiative; 1.90A {Homo sapiens}
Length = 168
Score = 89.4 bits (221), Expect = 9e-23
Identities = 28/117 (23%), Positives = 51/117 (43%), Gaps = 3/117 (2%)
Query: 87 LINIWSTVMAQVEWNKKEELVAEQALKHLKQFTPLFGAFTDTAPRAELALMLKVQEFCYE 146
+N S KE+L E+ L L F P+ F +++ + +Q CY
Sbjct: 54 EVNPPSDETDSSSAPSKEQLEQEKQL--LLSFKPVMQKFLHDHVDLQVSALYALQVHCYN 111
Query: 147 NMNLMRVFQKIILLFYKTDVISEEVILKWYKE-GHSIKGKIMFLEQMKKFVEWLQSA 202
+ + + + FY ++I EE L W ++ GK L Q+ +++ WL++A
Sbjct: 112 SNFPKGMLLRFFVHFYDMEIIEEEAFLAWKEDITQEFPGKGKALFQVNQWLTWLETA 168
>3l6a_A Eukaryotic translation initiation factor 4 gamma; C-terminal
region, MA2 domain, W2 domain, EIF4G2, EIF family
translation; HET: MES PG4; 2.00A {Homo sapiens}
Length = 364
Score = 92.3 bits (228), Expect = 2e-22
Identities = 25/142 (17%), Positives = 53/142 (37%), Gaps = 1/142 (0%)
Query: 62 ERIKLARMTALWITNGSVPPTVLQVLINIWSTVMAQVEWNKKEELVAEQALKHLKQFTPL 121
+ I N + + + + + + EQ + L F P+
Sbjct: 223 DNISPKLHVDKGFVNILMTSFLQYISSEVNPPSDETDSSSAPSKEQLEQEKQLLLSFKPV 282
Query: 122 FGAFTDTAPRAELALMLKVQEFCYENMNLMRVFQKIILLFYKTDVISEEVILKWYKEG-H 180
F +++ + +Q CY + + + + FY ++I EE L W ++
Sbjct: 283 MQKFLHDHVDLQVSALYALQVHCYNSNFPKGMLLRFFVHFYDMEIIEEEAFLAWKEDITQ 342
Query: 181 SIKGKIMFLEQMKKFVEWLQSA 202
GK L Q+ +++ WL++A
Sbjct: 343 EFPGKGKALFQVNQWLTWLETA 364
>2iu1_A EIF5, eukaryotic translation initiation factor 5; MFC, GTP-binding,
phosphorylation, protein biosynthesis, translation
inititation; 1.8A {Homo sapiens}
Length = 208
Score = 87.5 bits (216), Expect = 1e-21
Identities = 24/111 (21%), Positives = 46/111 (41%), Gaps = 5/111 (4%)
Query: 104 EELVAEQALKHLKQFTPLFGAFTDTAPRAELALMLKVQEFC-YENMNLMRVFQKIILLFY 162
E L E+ + +K++ F F +A+ L+ ++ L+ I+ Y
Sbjct: 51 EVLFNEKIREQIKKYRRHFLRFCHNNKKAQRYLLHGLECVVAMHQAQLISKIPHILKEMY 110
Query: 163 KTDVISEEVILKWYKEGHSIKGKIM----FLEQMKKFVEWLQSAEEGMSSE 209
D++ EEVI+ W ++ + + F++WL+ AEE S
Sbjct: 111 DADLLEEEVIISWSEKASKKYVSKELAKEIRVKAEPFIKWLKEAEEESSGG 161
>2ful_A EIF-5, eukaryotic translation initiation factor 5; atypical heat
motif; 1.50A {Saccharomyces cerevisiae}
Length = 177
Score = 83.2 bits (205), Expect = 2e-20
Identities = 25/106 (23%), Positives = 46/106 (43%), Gaps = 6/106 (5%)
Query: 104 EELVAEQALKHLKQFTPLFGAFTDTAPRAELALMLKVQEFC-YENMNLMRVFQKIILLFY 162
+ L E + + + F T P E M ++ F E+ +L+ + KI++ Y
Sbjct: 58 QCLFDEDIVNEIAEHNAFFTKILVT-PEYEKNFMGGIERFLGLEHKDLIPLLPKILVQLY 116
Query: 163 KTDVISEEVILKWYKEGH----SIKGKIMFLEQMKKFVEWLQSAEE 204
D+ISEE I+++ + + K F+ WL++AE
Sbjct: 117 NNDIISEEEIMRFGTKSSKKFVPKEVSKKVRRAAKPFITWLETAES 162
>1ug3_A EIF4GI, eukaryotic protein synthesis initiation factor 4G; heat
repeat, translation; 2.24A {Homo sapiens} SCOP:
a.118.1.14 a.118.1.14
Length = 339
Score = 62.9 bits (152), Expect = 4e-12
Identities = 13/89 (14%), Positives = 25/89 (28%), Gaps = 1/89 (1%)
Query: 90 IWSTVMAQVEWNKKEELVAEQALKHLKQFTPLFGAFTDTAPRAELALMLKVQEFCYENMN 149
+ + + A E + LK L + + EL + +Q
Sbjct: 247 VRALMTAVCYSAIIFETPLRVDVAVLKARAKLLQKYLCD-EQKELQALYALQALVVTLEQ 305
Query: 150 LMRVFQKIILLFYKTDVISEEVILKWYKE 178
+ + Y DV+ E+ W
Sbjct: 306 PPNLLRMFFDALYDEDVVKEDAFYSWESS 334
>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 = 40.7 bits (94), Expect = 8e-05
Identities = 12/37 (32%), Positives = 16/37 (43%), Gaps = 14/37 (37%)
Query: 109 EQALKH----LKQFTPLFGAFTDTAPRAELALMLKVQ 141
+QALK LK + D+AP AL +K
Sbjct: 19 KQALKKLQASLKLYAD------DSAP----ALAIKAT 45
>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 = 34.4 bits (78), Expect = 0.027
Identities = 38/226 (16%), Positives = 76/226 (33%), Gaps = 44/226 (19%)
Query: 17 QEDMQSLKNFEQVFIKLMRRY--KYLEKMFDEEMKKVLVFIKGFNETERIKLARMTALWI 74
++ + + N++ V + L + E +K+ + F + I ++ +W
Sbjct: 338 RDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIW- 396
Query: 75 TNGSVPPTVLQVLINIWSTVMAQVEWNK-------------KEELVAEQALKH---LKQF 118
+ V+ V+ + + + + K K +L E AL H + +
Sbjct: 397 -FDVIKSDVMVVVNKLHKYSLVE-KQPKESTISIPSIYLELKVKLENEYAL-HRSIVDHY 453
Query: 119 TPLFGAFTD--TAPRAE------LALMLKVQEFCYENMNLMR-VF-------QKII---- 158
+D P + + LK E E M L R VF QKI
Sbjct: 454 NIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEH-PERMTLFRMVFLDFRFLEQKIRHDST 512
Query: 159 LLFYKTDVISEEVILKWYKEGHSIKGKIMFLEQMKKFVEWLQSAEE 204
+++ LK+YK + + + +++L EE
Sbjct: 513 AWNASGSILNTLQQLKFYKP-YICDNDPKYERLVNAILDFLPKIEE 557
Score = 32.1 bits (72), Expect = 0.13
Identities = 21/132 (15%), Positives = 49/132 (37%), Gaps = 32/132 (24%)
Query: 34 MRRYKYLEKMFDEEMKKVLV---FIKGFNETERIKLARMTALWITNGSVPPTVLQVLINI 90
++ ++ E+M + V + F++ K+ + W +GS+ T+ Q +
Sbjct: 481 LKNIEHPERM--TLFRMVFLDFRFLEQ-------KIRHDSTAWNASGSILNTLQQ--LKF 529
Query: 91 WSTVMAQVEWNKKEELVAEQALKHLKQFTPLFGA------FTDTAPRAELALMLKVQEFC 144
+ + + E+ + + F P +TD +ALM + E
Sbjct: 530 YKPYIC------DNDPKYERLVNAILDFLPKIEENLICSKYTDL---LRIALMAE-DEAI 579
Query: 145 YENMNLMRVFQK 156
+E + + Q+
Sbjct: 580 FEEAH--KQVQR 589
Score = 28.3 bits (62), Expect = 2.1
Identities = 36/218 (16%), Positives = 67/218 (30%), Gaps = 44/218 (20%)
Query: 1 MNLYTSVQTTACIFEAQEDMQSLKNFEQVFIK--LMRRYKYLEKMFDEEMKKVLVFIKGF 58
+ +V T +F Q + Q F++ L YK+L E ++ + + +
Sbjct: 55 IMSKDAVSGTLRLFWTLLSKQ--EEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMY 112
Query: 59 NET-ERIKLARMTALWITNGSVPPTVLQVLINIWSTVMAQVEWNKKEELVAEQALKHLK- 116
E +R L+ N V + L QAL L+
Sbjct: 113 IEQRDR--------LYNDNQVFAK--YNV-------------SRLQPYLKLRQALLELRP 149
Query: 117 -QFTPLFG--AFTDTAPRAELALMLKVQEF------------CYENMNLMRVFQKIILLF 161
+ + G T ++ L KVQ C ++ + QK++
Sbjct: 150 AKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQI 209
Query: 162 YKTDVISEEVILKWYKEGHSIKGKIMFLEQMKKFVEWL 199
+ HSI+ ++ L + K + L
Sbjct: 210 DPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCL 247
>3v2d_E 50S ribosomal protein L3; ribosome associated inhibitor A, RAIA,
protein Y, stress RES stationary phase, ribosome
hibernation, ribosome; 2.70A {Thermus thermophilus}
PDB: 1vsp_C 2hgj_E 2hgq_E 2hgu_E 1vsa_C 2j03_E 2jl6_E
2jl8_E 2v47_E 2v49_E 2wdi_E 2wdj_E 2wdl_E 2wdn_E 2wh2_E
2wh4_E 2wrj_E 2wrl_E 2wro_E 2wrr_E ...
Length = 206
Score = 30.9 bits (71), Expect = 0.19
Identities = 6/18 (33%), Positives = 11/18 (61%)
Query: 69 MTALWITNGSVPPTVLQV 86
MT ++ + +VP TV+
Sbjct: 11 MTRIFRDDRAVPVTVILA 28
>2zjr_B 50S ribosomal protein L3; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: b.43.3.2 PDB: 1nwx_B* 1nwy_B*
1sm1_B* 1xbp_B* 2ogm_B* 2ogn_B* 2ogo_B* 2zjp_B* 2zjq_B
1nkw_B 3cf5_B* 3dll_B* 3pio_B* 3pip_B* 1pnu_B 1pny_B
1vor_E 1vou_E 1vow_E 1voy_E ...
Length = 211
Score = 29.8 bits (68), Expect = 0.46
Identities = 6/18 (33%), Positives = 11/18 (61%)
Query: 69 MTALWITNGSVPPTVLQV 86
MT +W + ++P TV+
Sbjct: 11 MTQIWKNDRAIPVTVVLA 28
>3p8c_B NCK-associated protein 1; actin polymerization, protein binding;
2.29A {Homo sapiens}
Length = 1128
Score = 29.3 bits (65), Expect = 1.1
Identities = 17/73 (23%), Positives = 27/73 (36%), Gaps = 8/73 (10%)
Query: 145 YENMNLMRVFQKIIL-----LFYKTDVISEEVILKWYKEG---HSIKGKIMFLEQMKKFV 196
Y +++ RVF ++L L + + WY E G I + MK FV
Sbjct: 756 YVQIDITRVFNNVLLQQTQHLDSHGEPTITSLYTNWYLETLLRQVSNGHIAYFPAMKAFV 815
Query: 197 EWLQSAEEGMSSE 209
E ++E
Sbjct: 816 NLPTENELTFNAE 828
>1sb8_A WBPP; epimerase, 4-epimerase, UDP-galnac, UDP-GLCNAC, SDR, G SYK,
UDP, N-acetylglucosamine, N- acetylgalactosamine,
UDP-GLC, isomerase; HET: NAD UD2; 2.10A {Pseudomonas
aeruginosa} SCOP: c.2.1.2 PDB: 1sb9_A*
Length = 352
Score = 28.8 bits (65), Expect = 1.4
Identities = 12/38 (31%), Positives = 17/38 (44%), Gaps = 6/38 (15%)
Query: 31 IKLMRRYKYLEKMFDEEMKKVLV-----FIKGFNETER 63
+ +M RY+ L K + K L+ FI G N E
Sbjct: 10 MGMMSRYEELRKELPAQPKVWLITGVAGFI-GSNLLET 46
>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 = 1.5
Identities = 38/288 (13%), Positives = 77/288 (26%), Gaps = 121/288 (42%)
Query: 1 MNLYTSVQTTACIFEAQEDMQSLKNFEQVFIKLMR------------------RYKYLEK 42
M+LY + + ++ + D + + ++ R Y
Sbjct: 1633 MDLYKTSKAAQDVWN-RADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAM 1691
Query: 43 MFDEEMKKVLVFIKGFNETERIKLARMTALWITNGSVPPTVL------QVLINIWSTVMA 96
+F+ + L K F E + + + +L Q + + A
Sbjct: 1692 IFETIVDGKLKTEKIFKE-----INEHSTSYTFRS--EKGLLSATQFTQPALTLME--KA 1742
Query: 97 QVEWNKKE---------------E---LVA-------EQALKHLKQFTPLF--GAFTDTA 129
E K + E L + E ++ + +F G A
Sbjct: 1743 AFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVE-V-----VFYRGMTMQVA 1796
Query: 130 -PRAELAL----ML--------------KVQEFCYE------------NMNLMRVFQKII 158
PR EL M+ +Q N N+ Q
Sbjct: 1797 VPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNV-ENQQ--- 1852
Query: 159 LLFYKTDVISEEV--------ILKWYKEGHSIK-GKI---MFLEQMKK 194
Y V + ++ +L + K I ++ + LE+++
Sbjct: 1853 ---Y---VAAGDLRALDTVTNVLNFIKL-QKIDIIELQKSLSLEEVEG 1893
>4g2n_A D-isomer specific 2-hydroxyacid dehydrogenase, Na; structural
genomics, protein structure initiative, nysgrc, P
biology; 1.70A {Polaromonas SP}
Length = 345
Score = 28.3 bits (64), Expect = 1.7
Identities = 14/120 (11%), Positives = 30/120 (25%), Gaps = 31/120 (25%)
Query: 25 NFEQVFIKLMRRYKYLEKMFDEEMKKVLVFIKGFNETERIKLARMTALWITNGSVPPTVL 84
+ + L Y + M ++K + R P +
Sbjct: 5 HHHSSGVDLGTENLYFQSMSTHPIQKAFL-------CRRF---------------TPAIE 42
Query: 85 QVLINIWSTVMAQVEWNKKEELV-AEQALKHLKQFTPLFGAFTDTAPRAELALM---LKV 140
L + +E N ++ ++ LF T+ + + LK
Sbjct: 43 AELRQRF-----DLEVNLEDTVLTPSGIASRAHGAEVLFVTATEAITAEVIRKLQPGLKT 97
>3ruf_A WBGU; rossmann fold, UDP-hexose 4-epimerase, isomerase; HET: NAD
UDP; 2.00A {Plesiomonas shigelloides} PDB: 3ru9_A*
3rud_A* 3rue_A* 3rua_A* 3ruh_A* 3ruc_A* 3ru7_A* 3lu1_A*
Length = 351
Score = 28.4 bits (64), Expect = 1.9
Identities = 10/35 (28%), Positives = 15/35 (42%), Gaps = 6/35 (17%)
Query: 34 MRRYKYLEKMFDEEMKKVLV-----FIKGFNETER 63
M RY+ + + K L+ FI G N E+
Sbjct: 11 MSRYEEITQQLIFSPKTWLITGVAGFI-GSNLLEK 44
>2oat_A Ornithine aminotransferase; 5-fluoromethylornithine, PLP-dependent
ENZ pyridoxal phosphate; HET: PFM; 1.95A {Homo sapiens}
SCOP: c.67.1.4 PDB: 1oat_A* 2byj_A* 2byl_A* 1gbn_A*
2can_A*
Length = 439
Score = 28.4 bits (64), Expect = 2.1
Identities = 7/28 (25%), Positives = 12/28 (42%)
Query: 31 IKLMRRYKYLEKMFDEEMKKVLVFIKGF 58
KL R++ Y K + K++ F
Sbjct: 150 CKLARKWGYTVKGIQKYKAKIVFAAGNF 177
>3ruy_A Ornithine aminotransferase; structural genomics, csgid, center for
structural genomics O infectious diseases, alpha and
beta protein; HET: LLP; 2.65A {Bacillus anthracis}
Length = 392
Score = 27.9 bits (63), Expect = 2.4
Identities = 8/28 (28%), Positives = 13/28 (46%)
Query: 31 IKLMRRYKYLEKMFDEEMKKVLVFIKGF 58
IK RR+ Y K + +++V F
Sbjct: 110 IKTARRWAYDVKKVEANRAEIIVCEDNF 137
>1z7d_A Ornithine aminotransferase; structural genomics consortium, SGC,
malaria; 2.10A {Plasmodium yoelii yoelii} SCOP: c.67.1.4
PDB: 3lg0_A 3ntj_A
Length = 433
Score = 28.0 bits (63), Expect = 2.4
Identities = 10/28 (35%), Positives = 14/28 (50%)
Query: 31 IKLMRRYKYLEKMFDEEMKKVLVFIKGF 58
KL R++ Y K E M K++V F
Sbjct: 139 YKLCRKWGYEVKKIPENMAKIVVCKNNF 166
>3hi0_A Putative exopolyphosphatase; 17739545, structural genomics, center
for structural genomics, JCSG, protein structure INI
PSI-2; HET: MSE; 2.30A {Agrobacterium tumefaciens str}
Length = 508
Score = 28.0 bits (63), Expect = 2.5
Identities = 16/110 (14%), Positives = 36/110 (32%), Gaps = 20/110 (18%)
Query: 27 EQVFIKLMRRYKY-----------LEKMFDEEMKKVLVFIKGFNETERIKLARMTALWIT 75
+ +I L Y++ L M E ++++ + G +++ + +
Sbjct: 400 GRAYIALANYYRFEGLNDNGTTEPLAAMAGERLQELGKLLGGL-----LRVVYL--FSAS 452
Query: 76 -NGSVPPTVLQVLINIWSTVMAQVEWNKKEELVAEQALKHLKQFTPLFGA 124
G V + N + V + + E+ L+Q L G
Sbjct: 453 MPGVVDHLKFRKSDNPDIDLEFVVP-HDYCDFAGERLDGRLQQLAKLTGK 501
>4gdh_A DJ-1, uncharacterized protein C22E12.03C; unknown function,
cysteine oxidation; 1.05A {Schizosaccharomyces pombe}
PDB: 4ge3_A 4ge0_A
Length = 194
Score = 26.8 bits (60), Expect = 4.5
Identities = 7/16 (43%), Positives = 10/16 (62%), Gaps = 1/16 (6%)
Query: 48 MKKVLVFI-KGFNETE 62
M KV +F+ G +E E
Sbjct: 4 MVKVCLFVADGTDEIE 19
>3piu_A 1-aminocyclopropane-1-carboxylate synthase; fruit ripening,
ethylene biosynthesis, lyase, pyridoxal 5'-P binding;
HET: LLP PLR; 1.35A {Malus domestica} PDB: 1m4n_A*
1m7y_A* 1ynu_A* 1b8g_A*
Length = 435
Score = 26.9 bits (60), Expect = 5.6
Identities = 10/47 (21%), Positives = 13/47 (27%), Gaps = 9/47 (19%)
Query: 5 TSVQTTACIFEAQEDMQSLKNFEQVFIKLMR-----RYKYLEKMFDE 46
S QT M S K + +I R K L +
Sbjct: 305 VSSQTQH----LLSAMLSDKKLTKNYIAENHKRLKQRQKKLVSGLQK 347
>2rk3_A Protein DJ-1; parkinson'S disease, THIJ, PFPI, chaperone,
cytoplasm, disease mutation, nucleus, oncogene,
oxidation, parkinson disease; 1.05A {Homo sapiens} PDB:
1pdv_A 1pdw_A 3cy6_A 1pe0_A 3cza_A 3cyf_A 2rk4_A
3cz9_A* 3ezg_A 3f71_A 3sf8_A 1p5f_A 1ps4_A 1q2u_A
1soa_A 1ucf_A 2or3_A 3bwe_A 3b38_A 3b36_A ...
Length = 197
Score = 26.4 bits (59), Expect = 7.1
Identities = 7/17 (41%), Positives = 9/17 (52%), Gaps = 1/17 (5%)
Query: 47 EMKKVLVFI-KGFNETE 62
K+ LV + KG E E
Sbjct: 2 ASKRALVILAKGAEEME 18
>3odw_A RHO guanine nucleotide exchange factor 1; regulation of RHOA
GTPase, rhogef, DH, PH, signaling PR; 3.20A {Homo
sapiens} PDB: 3odx_A
Length = 536
Score = 26.6 bits (58), Expect = 7.4
Identities = 22/144 (15%), Positives = 50/144 (34%), Gaps = 16/144 (11%)
Query: 20 MQSLKNFEQVFIKLMRRYKYLEKMFDEEMKKVLVFIKGFNETERIKLARMTALWITNGSV 79
++ L+ +F + M + EE++ + + E + L R+ +G +
Sbjct: 196 VRMLRVLHDLFFQPMAECLFFP---LEELQNIFPSLDELIEVHSLFLDRLMKRRQESGYL 252
Query: 80 PPTVLQVLINIWSTVMAQVEWNK------KEELVAEQALKHLKQFTPLFGAFTDTAPRAE 133
+ VL+ + K + A + LK ++ P F AF A
Sbjct: 253 IEEIGDVLLA-RFDGAEGSWFQKISSRFCSRQSFALEQLKAKQRKDPRFCAFVQEAESRP 311
Query: 134 LALMLKVQEFCYENMNLMRVFQKI 157
L++++ + Q++
Sbjct: 312 RCRRLQLKDM------IPTEMQRL 329
>2fex_A Conserved hypothetical protein; structural genomics, protein
structure initiative, PSI, MIDW center for structural
genomics, MCSG; 1.70A {Agrobacterium tumefaciens} SCOP:
c.23.16.2
Length = 188
Score = 25.7 bits (57), Expect = 8.5
Identities = 3/16 (18%), Positives = 9/16 (56%), Gaps = 1/16 (6%)
Query: 48 MKKVLVFI-KGFNETE 62
M ++ + + + F + E
Sbjct: 1 MTRIAIALAQDFADWE 16
>3god_A CAS1; crispr, metallonuclease, DNAse, prokaryotic immune system,
immune system; 2.17A {Pseudomonas aeruginosa}
Length = 328
Score = 26.2 bits (57), Expect = 9.5
Identities = 10/52 (19%), Positives = 19/52 (36%), Gaps = 1/52 (1%)
Query: 1 MNLYTSVQTTACIFEAQEDMQSLKNFEQVFIKLMRRYKYLEKMFDEEMKKVL 52
+L F + ++F Q + + R + L+ M D +K V
Sbjct: 271 ADLIKDSLILPQAFLSAMRGDEEQDFRQACLDNLSRAQALDFMID-TLKDVA 321
>3c9p_A Uncharacterized protein SP1917; structural genomics, PSI- protein
structure initiative, midwest center for structural
genomics, MCSG; 1.96A {Streptococcus pneumoniae}
Length = 123
Score = 25.5 bits (56), Expect = 9.6
Identities = 8/31 (25%), Positives = 16/31 (51%), Gaps = 5/31 (16%)
Query: 27 EQVFIKLMRRYKYLEKMFDE-----EMKKVL 52
E++ LM+ + L+K+ D ++VL
Sbjct: 86 EEIDDPLMQEIRRLDKLVDWLAKGKTSQQVL 116
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
0.322 0.134 0.387
Gapped
Lambda K H
0.267 0.0795 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,222,565
Number of extensions: 188230
Number of successful extensions: 596
Number of sequences better than 10.0: 1
Number of HSP's gapped: 585
Number of HSP's successfully gapped: 40
Length of query: 210
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 121
Effective length of database: 4,216,824
Effective search space: 510235704
Effective search space used: 510235704
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 (22.0 bits)
S2: 55 (24.8 bits)