RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 024999
(259 letters)
>2dc0_A Probable amidase; structural genomics, NPPSFA, national project on
protein structural and functional analyses; 2.00A
{Thermus thermophilus}
Length = 434
Score = 136 bits (346), Expect = 5e-38
Identities = 52/166 (31%), Positives = 77/166 (46%), Gaps = 7/166 (4%)
Query: 96 MSVLELGALIRTKQITSEELTRIFLKRLKRYNPALEAVVTYTDELAYQQAKEADELLAQG 155
M +LE L+ T + T L L+R K + A+ +E A ++A E L +G
Sbjct: 1 MDLLEAKRLLETGRTTPLALLEEALERAKAFQD-RNALAYLDEEAARKEALALTEELRRG 59
Query: 156 KYLGPLHGIPYGLKDIIAVPQYKTTWGSTTFKNQVLNTEAWVYKRLKSAGAVLVAKLVSG 215
+ GPLHG+P +KD+ V T G+ + EA +RL+ AGA+L AK
Sbjct: 60 QVRGPLHGLPLTVKDLFPVKGMPTRAGTKAPLPPL-PEEARAVRRLREAGALLFAKTNMH 118
Query: 216 SLAY----DDIWFGGRTRNPWNIEEFSTGSSAGPAACTSAGILLFS 257
+A ++ W G RN + + GSS G A + GI L S
Sbjct: 119 EIALGITGENPWT-GPVRNAVDPSRQAGGSSGGSAVAVALGIGLAS 163
>3ip4_A Glutamyl-tRNA(Gln) amidotransferase subunit A; multi protein
complex, ligase, ATP-binding, nucleotide-bindi protein
biosynthesis; 1.90A {Staphylococcus aureus subsp} PDB:
2df4_A 2dqn_A* 2g5h_A 2g5i_A* 2f2a_A
Length = 485
Score = 135 bits (342), Expect = 4e-37
Identities = 51/175 (29%), Positives = 84/175 (48%), Gaps = 15/175 (8%)
Query: 92 DIAFMSVLELGALIRTKQITSEELTRIFLKRLKRYNPALEAVVTYTDELAYQQAKEADEL 151
I + SV L LI+ K+I ++ + ++ +P +++ + E A ++A+E DEL
Sbjct: 2 SIRYESVENLLTLIKDKKIKPSDVVKDIYDAIEETDPTIKSFLALDKENAIKKAQELDEL 61
Query: 152 LAQGKYLGPLHGIPYGLKDIIAVPQYKTTWGSTTFKNQVLNTEAWVYKRLKSAGAVLVAK 211
A+ + G L GIP G+KD I +TT S + V E+ V ++L AVL+ K
Sbjct: 62 QAKDQMDGKLFGIPMGIKDNIITNGLETTCASKMLEGFVPIYESTVMEKLHKENAVLIGK 121
Query: 212 L-----VSGSL----AYDDIWFGGRTRNPWNIEEFSTGSSAGPAACTSAGILLFS 257
L G + +T NP++ + GSS G AA +AG++ S
Sbjct: 122 LNMDEFAMGGSTETSYF------KKTVNPFDHKAVPGGSSGGSAAAVAAGLVPLS 170
>1m22_A Peptide amidase, PAM; eleven-stranded beta sheet, covered double
layers of alpha helices on TOP and bottom, hydrolase;
HET: EPE; 1.40A {Stenotrophomonas maltophilia} SCOP:
c.117.1.1 PDB: 1m21_A*
Length = 503
Score = 132 bits (335), Expect = 5e-36
Identities = 54/172 (31%), Positives = 82/172 (47%), Gaps = 13/172 (7%)
Query: 92 DIAFMSVLELGALIRTKQITSEELTRIFLKRLKRYN---PALEAVVTYTDELAYQQAKEA 148
A V +L A + ++ S LT+ +L+R+ + P L AV+ + A ++A E
Sbjct: 7 PYAETDVADLQARMTAGELDSTTLTQAYLQRIAALDRTGPRLRAVIELNPD-ALKEAAER 65
Query: 149 DELLAQGKYLGPLHGIPYGLKDIIAVPQYKTTWGSTTFKNQVLNTEAWVYKRLKSAGAVL 208
D G+ GPLHGIP LKD I T+ GS + + +A++ +RL+ AGAV+
Sbjct: 66 DRERRDGRLRGPLHGIPLLLKDNINAAPMATSAGSLALQGFRPD-DAYLVRRLRDAGAVV 124
Query: 209 VAKL------VSGSLAYDDIW--FGGRTRNPWNIEEFSTGSSAGPAACTSAG 252
+ K W GG+TRNP+ I GSS+G A +A
Sbjct: 125 LGKTNLSEWANFRGNDSISGWSARGGQTRNPYRISHSPCGSSSGSAVAVAAN 176
>3a2q_A 6-aminohexanoate-cyclic-dimer hydrolase; alpha/beta fold, nylon
degradation; 1.80A {Arthrobacter SP} PDB: 3a2p_A
Length = 493
Score = 131 bits (332), Expect = 1e-35
Identities = 45/176 (25%), Positives = 75/176 (42%), Gaps = 27/176 (15%)
Query: 91 EDIAFMSVLELGALIRTKQITSEELTRIFLKRLKRYNPALEAVVTYTDELAYQQAKEADE 150
+ + L+R+ +I+ EL + ++ NP + AV+ E A ++++ A
Sbjct: 3 KVDLWQDATAQAELVRSGEISRTELLEATIAHVQAVNPEINAVIIPLFEKARRESELAS- 61
Query: 151 LLAQGKYLGPLHGIPYGLKDIIAVPQ-YKTTWGSTTFKNQ--VLNTEAWVYKRLKSAGAV 207
GP G+PY LKD+ V Q T K + +A+ +R+++AG V
Sbjct: 62 --------GPFAGVPYLLKDLTVVSQGDINTSSIKGMKESGYRADHDAYFVQRMRAAGFV 113
Query: 208 LVAKL---------VSGSLAYDDIWFGGRTRNPWNIEEFSTGSSAGPAACTSAGIL 254
L+ K + A+ G TRNPWN+ GSS G A +A +
Sbjct: 114 LLGKTNTPEMGNQVTTEPEAW------GATRNPWNLGRSVGGSSGGSGAAVAAALS 163
>1o9p_A Malonamidase E2; malonate; 1.8A {Bradyrhizobium japonicum} SCOP:
c.117.1.1 PDB: 1o9o_A 1obl_A 1och_A 1obk_A 1obi_A
1o9q_A* 1obj_A 1o9n_A 1ock_A 1ocl_A 1ocm_A
Length = 414
Score = 128 bits (325), Expect = 5e-35
Identities = 40/162 (24%), Positives = 65/162 (40%), Gaps = 16/162 (9%)
Query: 96 MSVLELGALIRTKQITSEELTRIFLKRLKRYNPALEAVVTYTDELAYQQAKEADELLAQG 155
+S+ +L I T +++ ++ + A V +
Sbjct: 2 ISLADLQRRIETGELSPNAAIAQSHAAIEAREKEVHAFVRHDKSAR-------------A 48
Query: 156 KYLGPLHGIPYGLKDIIAVPQYKTTWGSTTFKNQVLNTEAWVYKRLKSAGAVLVAKLVSG 215
+ GPL GI G+KDII T GS ++ ++A V LK AGA ++ K +
Sbjct: 49 QASGPLRGIAVGIKDIIDTANMPTEMGSEIYRGWQPRSDAPVVMMLKRAGATIIGKTTTT 108
Query: 216 SLAYDDIWFGGRTRNPWNIEEFSTGSSAGPAACTSAGILLFS 257
+ A D T NP N G+S+G AA AG++ +
Sbjct: 109 AFASRD---PTATLNPHNTGHSPGGASSGSAAAVGAGMIPLA 147
>3ppm_A Fatty-acid amide hydrolase 1; protein-inhibitor complex, FAAH,
oxazole, oxadiazole, endoca degradation, membrane
protein; HET: JG1 1DO; 1.78A {Rattus norvegicus} PDB:
2wj2_A* 3k7f_A* 3k83_A* 3k84_A* 3lj6_A* 3lj7_A 3oj8_A*
2wj1_A* 3pr0_A* 2wap_A* 1mt5_A* 2vya_A* 3qk5_A* 3qj8_A*
3qj9_A* 3qkv_A*
Length = 573
Score = 129 bits (326), Expect = 2e-34
Identities = 40/192 (20%), Positives = 80/192 (41%), Gaps = 16/192 (8%)
Query: 67 EQEQEASKIFNYPSISDIQKPE-NEEDIAFMSVLELGALIRTKQITSEELTRIFLKRLKR 125
+Q + +Q P+ + E + + +L+L +++ +++ E + +L +
Sbjct: 41 KQRASLETMDKAVQRFRLQNPDLDSEALLTLPLLQLVQKLQSGELSPEAVFFTYLGKAWE 100
Query: 126 YNPALEAVVTYTDELAYQQAKEADELLAQGKYLGPLHGIPYGLKDIIAVPQYKTTWGSTT 185
N V +Y + + L+Q G L+G+P LK+ + + +T G +
Sbjct: 101 VNKGTNCVTSY--------LTDCETQLSQAPRQGLLYGVPVSLKECFSYKGHDSTLGLSL 152
Query: 186 FKNQVLNTEAWVYKRLKSAGAVLVAK--LVSGSLAYD---DIWFGGRTRNPWNIEEFSTG 240
+ ++ V + LK GAV + +YD ++ G+T NPW + G
Sbjct: 153 NEGMPSESDCVVVQVLKLQGAVPFVHTNVPQSMFSYDCSNPLF--GQTMNPWKSSKSPGG 210
Query: 241 SSAGPAACTSAG 252
SS G A +G
Sbjct: 211 SSGGEGALIGSG 222
>3h0l_A Glutamyl-tRNA(Gln) amidotransferase subunit A; multi protein
complex, ligase, protein biosynthesis; HET: ADP; 2.30A
{Aquifex aeolicus} PDB: 3h0m_A 3h0r_A*
Length = 478
Score = 121 bits (306), Expect = 5e-32
Identities = 53/171 (30%), Positives = 78/171 (45%), Gaps = 21/171 (12%)
Query: 96 MSVLELGALIRTKQITSEELTRIFLKRLKRYNPALEAVVTYTDELAYQQAKEADELLAQG 155
S+ EL L++ +++ +E+ F R + ++A +T A +QA+ E
Sbjct: 5 KSLSELRELLKRGEVSPKEVVESFYDRYNQTEEKVKAYITPLYGKALKQAESLKERE--- 61
Query: 156 KYLGPLHGIPYGLKDIIAVPQYKTTWGSTTFKNQVLNTEAWVYKRLKSAGAVLVAKL--- 212
PL GIP +KD I V KTT S +N V +A V +RLK AGA++V K
Sbjct: 62 ---LPLFGIPIAVKDNILVEGEKTTCASKILENFVAPYDATVIERLKKAGALIVGKTNLD 118
Query: 213 --VSGSL----AYDDIWFGGRTRNPWNIEEFSTGSSAGPAACTSAGILLFS 257
GS A+ T+NPW++E GSS G AA + S
Sbjct: 119 EFAMGSSTEYSAF------FPTKNPWDLERVPGGSSGGSAASVAVLSAPVS 163
>3kfu_E Glutamyl-tRNA(Gln) amidotransferase subunit A; ASPRS, gatcab,
ATP-binding, aminoacyl-tRNA synthetase, ligas
nucleotide-binding, protein biosynthesis, ligase-RNA
comple; HET: H2U 5MU PSU; 3.00A {Thermus thermophilus}
Length = 471
Score = 116 bits (294), Expect = 2e-30
Identities = 46/171 (26%), Positives = 79/171 (46%), Gaps = 23/171 (13%)
Query: 96 MSVLELGALIRTKQITSEELTRIFLKRLKRYNPALEAVVTYTDELAYQQAKEADELLAQG 155
M E+ A + +++ E+ + +LKR++ +P L A ++ + ++A+ D
Sbjct: 1 MLAHEIRARVARGEVSPLEVAQAYLKRVQELDPGLGAFLSLNER-LLEEAEAVDPG---- 55
Query: 156 KYLGPLHGIPYGLKDIIAVPQYKTTWGSTTFKNQVLNTEAWVYKRLKSAGAVLVAKL--- 212
PL G+ +KD IA +TT GS +N V EA RLK+ GA+++ K
Sbjct: 56 ---LPLAGLVVAVKDNIATRGLRTTAGSRLLENFVPPYEATAVARLKALGALVLGKTNLD 112
Query: 213 --VSGSL----AYDDIWFGGRTRNPWNIEEFSTGSSAGPAACTSAGILLFS 257
GS A+ T+NP++ + GSS G AA +A + +
Sbjct: 113 EFGMGSSTEHSAF------FPTKNPFDPDRVPGGSSGGSAAALAADLAPLA 157
>2gi3_A Glutamyl-tRNA(Gln) amidotransferase subunit A; TM1272, structural
genomics, joint center for structura genomics, JCSG;
HET: MSE MPD; 1.80A {Thermotoga maritima} SCOP:
c.117.1.1 PDB: 3al0_A*
Length = 476
Score = 109 bits (275), Expect = 1e-27
Identities = 46/171 (26%), Positives = 79/171 (46%), Gaps = 28/171 (16%)
Query: 96 MSVLELGALIRTKQITSEELTRIFLKRLKRYNPALEAVVTYTDELAYQQAKEADELLAQG 155
L + ++ + E+L ++ L+ +KR +P ++A ++ + ++ ++
Sbjct: 7 FRKLTIEECLKLSEEEREKLPQLSLETIKRLDPHVKAFISVRENVSVEKK---------- 56
Query: 156 KYLGPLHGIPYGLKDIIAVPQYKTTWGSTTFKNQVLNTEAWVYKRLKSAGAVLVAKL--- 212
G GIP +KD I +TT S +N +A V K++K AG V+V K
Sbjct: 57 ---GKFWGIPVAIKDNILTLGMRTTCASRILENYESVFDATVVKKMKEAGFVVVGKANLD 113
Query: 213 --VSGSL----AYDDIWFGGRTRNPWNIEEFSTGSSAGPAACTSAGILLFS 257
GS A+ TRNPW++E GSS G AA SAG+++ +
Sbjct: 114 EFAMGSSTERSAF------FPTRNPWDLERVPGGSSGGSAAAVSAGMVVAA 158
>3a1k_A Amidase; AS family enzyme, hydrolase; 2.17A {Rhodococcus SP} PDB:
3a1i_A
Length = 521
Score = 95.8 bits (239), Expect = 8e-23
Identities = 43/186 (23%), Positives = 64/186 (34%), Gaps = 23/186 (12%)
Query: 84 IQKPENEE--DIAFMSVLELGALIRTKQITSEELTRIFLKRLKRYNPALEAVVTYTDELA 141
+P+++ A + L R + + + + T + E A
Sbjct: 3 TIRPDDKAIDAAARHYGITLDKTARLEWPALIDGALGSYDVVDQLYADEATPPTTSREHA 62
Query: 142 YQQAKE------ADELLAQGKYLGPLHGIPYGLKDIIAVPQYKTTWGSTTFKNQVLNTEA 195
A E G L G +KD + V GS T + + +A
Sbjct: 63 VPSASENPLSAWYVTTSIPPTSDGVLTGRRVAIKDNVTVAGVPMMNGSRTVEGFTPSRDA 122
Query: 196 WVYKRLKSAGAVLVAKLV------SGSL---AYDDIWFGGRTRNPWNIEEFSTGSSAGPA 246
V RL +AGA + K V SGS A G RNPW+ + + GSS G A
Sbjct: 123 TVVTRLLAAGATVAGKAVCEDLCFSGSSFTPAS------GPVRNPWDRQREAGGSSGGSA 176
Query: 247 ACTSAG 252
A + G
Sbjct: 177 ALVANG 182
>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 = 48.1 bits (114), Expect = 2e-06
Identities = 47/304 (15%), Positives = 92/304 (30%), Gaps = 101/304 (33%)
Query: 2 HASQLKCTF---------------------ELLDSNF--FNERKVLEIAKGATEFNLPII 38
ASQL+ F EL+ F + V G + ++
Sbjct: 29 IASQLQEQFNKILPEPTEGFAADDEPTTPAELV-GKFLGYVSSLVEPSKVGQFD---QVL 84
Query: 39 RA-----NRKLIASENGGLHNPSVLTFNPDWGTEQEQEASKIFNY-PSISDIQKPENEED 92
+ + +H + T + I NY + ++P +++
Sbjct: 85 NLCLTEFENCYLEGND--IHA-LAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKK- 140
Query: 93 IAFMSVLELGALIRTKQITSEELTRIF------------LKRL-KRYNPALEAVVTYTD- 138
AL R + +L IF L+ L + Y+ + ++ ++
Sbjct: 141 -------SNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAE 193
Query: 139 ---ELAYQQAKEADELLAQG----KYL-GP--------LHGIPYGLKDIIAVPQ---YKT 179
EL + +A+++ QG ++L P L IP +I V Q Y
Sbjct: 194 TLSELI-RTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCP-LIGVIQLAHY-- 249
Query: 180 TWGSTTFKNQVLNTEAWVYKRLKSA----GAVLVAKLVSGSLAYDD------------IW 223
T K + LK A ++ A ++ + +++ +
Sbjct: 250 ---VVTAKLLGFTPGE-LRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFF 305
Query: 224 FGGR 227
G R
Sbjct: 306 IGVR 309
Score = 41.6 bits (97), Expect = 2e-04
Identities = 33/200 (16%), Positives = 55/200 (27%), Gaps = 71/200 (35%)
Query: 64 WGTEQEQEASKIF--NYP-SISDIQKPENEEDIAFMSVLELGALIRTKQITSEELTRIFL 120
W A F Y SI DI N ++ E G IR
Sbjct: 1646 W-----NRADNHFKDTYGFSILDIVI-NNPVNLTIHFGGEKGKRIR-------------- 1685
Query: 121 KRLKRYNPALEAVVTYTDELAYQQAKEADELLAQGKYLGPLHGIPYGLKDIIAVPQYKTT 180
+ Y+ + + + KE +E + K +++ Q+
Sbjct: 1686 ---ENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSE--------KGLLSATQF--- 1731
Query: 181 WGSTTFKNQV--LNTEAWVYKRLKSAGAVLVAKLVSG-SLAYDDIWFGGRTRNPWNIEEF 237
T Q E ++ LKS G + +G SL G E+
Sbjct: 1732 ----T---QPALTLMEKAAFEDLKSKGLIPADATFAGHSL-------G----------EY 1767
Query: 238 STGSSAGPAACTSAGILLFS 257
+ A + A ++
Sbjct: 1768 A-------ALASLADVMSIE 1780
>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 = 31.7 bits (71), Expect = 0.26
Identities = 20/164 (12%), Positives = 46/164 (28%), Gaps = 30/164 (18%)
Query: 2 HASQLKCTFELLD---SNFFNERK------VL------EIAKGATEFNLP----IIRANR 42
H+S +K + + VL + FNL + +
Sbjct: 219 HSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNA---FNLSCKILLTTRFK 275
Query: 43 KLIASENGGLHNPSVLTFNPDWGTEQEQEA--SKIFNYPSISDIQKPENEEDIAFMSVLE 100
++ + L + T E ++ K + D+ P +
Sbjct: 276 QVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDC-RPQDL--PREVLTTNPRRLSI 332
Query: 101 LGALIRTKQITSEELTRIFLKRLKRYNPALEAVVTYTDELAYQQ 144
+ IR T + + +L +E+ + + Y++
Sbjct: 333 IAESIRDGLATWDNWKHVNCDKLTT---IIESSLNVLEPAEYRK 373
>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 = 0.61
Identities = 9/34 (26%), Positives = 14/34 (41%), Gaps = 13/34 (38%)
Query: 108 KQITSEELTRIFLK-RLKRYNP------ALEAVV 134
KQ L + L+ LK Y A++A +
Sbjct: 19 KQ----ALKK--LQASLKLYADDSAPALAIKATM 46
>3rru_A TOM1L1 protein; structural genomics, PSI-biology, northeast
structural genom consortium, NESG, super-helical
protein; 3.00A {Homo sapiens}
Length = 152
Score = 29.2 bits (65), Expect = 0.72
Identities = 22/127 (17%), Positives = 43/127 (33%), Gaps = 16/127 (12%)
Query: 90 EEDIAFMSVLELGALIRTKQITSEELTRIFLKRLKRYNP---------ALEAVVTYTDEL 140
ED + + +I T Q ++ + KR+ + ++ V
Sbjct: 31 TEDWGQF--MHICDIINTTQDGPKDAVKALKKRISKNYNHKEIQLTLSLIDMCVQNCGPS 88
Query: 141 AYQQAKEADELL-AQGKYLGPLHGIPYGLKDIIAVPQYKTTWGSTTFKNQV-LNTEAWVY 198
+ + + K L P + +P +++ I + TW S F V ++ VY
Sbjct: 89 FQSLIVKKEFVKENLVKLLNPRYNLPLDIQNRIL--NFIKTW-SQGFPGGVDVSEVKEVY 145
Query: 199 KRLKSAG 205
L G
Sbjct: 146 LDLVKKG 152
>1npm_A Neuropsin; serine proteinase, glycoprotein; HET: NAG; 2.10A {Mus
musculus} SCOP: b.47.1.2
Length = 225
Score = 27.9 bits (63), Expect = 2.9
Identities = 8/44 (18%), Positives = 17/44 (38%), Gaps = 5/44 (11%)
Query: 51 GLHNPSVLTFNPDWGTEQEQEASKIFNYPSISDIQKPENEEDIA 94
G H+ EQE + ++ +P ++ ++ DI
Sbjct: 52 GDHSLQSRD-----QPEQEIQVAQSIQHPCYNNSNPEDHSHDIM 90
>3ldz_A STAM-1, signal transducing adapter molecule 1; ubiquitin-binding,
cytoplasm, UBL conjugation, endosome, membrane, protein
transport, SH3 domain; 2.60A {Homo sapiens}
Length = 140
Score = 26.8 bits (59), Expect = 4.0
Identities = 20/123 (16%), Positives = 44/123 (35%), Gaps = 13/123 (10%)
Query: 90 EEDIAFMSVLELGALIRTKQITSEELTRIFLKRLKRYNP--ALEAVVTYTDELAYQQAKE 147
ED + L++ + + ++ R ++R+ +P A++A +T K
Sbjct: 20 AEDWGLI--LDICDKVGQSRTGPKDCLRSIMRRVNHKDPHVAMQA-LTLLGACVSNCGKI 76
Query: 148 ADELLAQGKYL----GPLHGIPYGLKDIIAVPQYKTTWGSTTFKNQV-LNTEAWVYKRLK 202
+ + L+ + + + W + FKN L+ + + K LK
Sbjct: 77 FHLEVCSRDFASEVSNVLNKGHPKVCEKLK--ALMVEW-TDEFKNDPQLSLISAMIKNLK 133
Query: 203 SAG 205
G
Sbjct: 134 EQG 136
>3i5x_A ATP-dependent RNA helicase MSS116; protein-RNA complex, RNA
helicase, DEAD-BOX, ATP-binding, HE hydrolase,
mitochondrion; HET: ANP; 1.90A {Saccharomyces
cerevisiae} PDB: 3i5y_A* 3i61_A* 3i62_A* 3sqx_A*
Length = 563
Score = 27.8 bits (62), Expect = 4.2
Identities = 9/40 (22%), Positives = 14/40 (35%), Gaps = 1/40 (2%)
Query: 133 VVTYTDELAYQQAKEADELLAQGKYLGPLHGIP-YGLKDI 171
+V T +LA Q E ++ L + G D
Sbjct: 151 IVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDF 190
>1dvp_A HRS, hepatocyte growth factor-regulated tyrosine kinase substrate;
VHS, FYVE, zinc finger, superhelix, transferase; HET:
CIT; 2.00A {Drosophila melanogaster} SCOP: a.118.9.2
g.50.1.1
Length = 220
Score = 27.4 bits (60), Expect = 4.4
Identities = 9/39 (23%), Positives = 15/39 (38%), Gaps = 2/39 (5%)
Query: 90 EEDIAFMSVLELGALIRTKQITSEELTRIFLKRLKRYNP 128
E D + L + I K +T + K++ NP
Sbjct: 20 EPDWPSI--LLICDEINQKDVTPKNAFAAIKKKMNSPNP 56
>3sqw_A ATP-dependent RNA helicase MSS116, mitochondrial; RECA fold, RNA
dependent ATPase, RNA helicase; HET: ANP; 1.91A
{Saccharomyces cerevisiae S288C}
Length = 579
Score = 27.9 bits (62), Expect = 4.4
Identities = 9/40 (22%), Positives = 14/40 (35%), Gaps = 1/40 (2%)
Query: 133 VVTYTDELAYQQAKEADELLAQGKYLGPLHGIP-YGLKDI 171
+V T +LA Q E ++ L + G D
Sbjct: 100 IVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDF 139
>3zyq_A Hepatocyte growth factor-regulated tyrosine kinas substrate;
signaling; 1.48A {Homo sapiens} PDB: 4avx_A*
Length = 226
Score = 27.4 bits (60), Expect = 4.9
Identities = 9/39 (23%), Positives = 16/39 (41%), Gaps = 2/39 (5%)
Query: 90 EEDIAFMSVLELGALIRTKQITSEELTRIFLKRLKRYNP 128
E D + L++ LIR ++ K++ NP
Sbjct: 23 ETDWESI--LQICDLIRQGDTQAKYAVNSIKKKVNDKNP 59
>1elk_A Target of MYB1; superhelix of helices, endocytosis/exocytosis
complex; 1.50A {Homo sapiens} SCOP: a.118.9.2
Length = 157
Score = 26.8 bits (59), Expect = 5.0
Identities = 22/127 (17%), Positives = 44/127 (34%), Gaps = 16/127 (12%)
Query: 90 EEDIAFMSVLELGALIRTKQITSEELTRIFLKRLKRY-NP--------ALEAVVTYTDEL 140
ED A +E+ +I + ++ R KR+ N LE V
Sbjct: 31 SEDWALN--MEICDIINETEEGPKDALRAVKKRIVGNKNFHEVMLALTVLETCVKNCGHR 88
Query: 141 AYQQAKEADELLAQ-GKYLGPLHGIPYGLKDIIAVPQYKTTWGSTTFKNQV-LNTEAWVY 198
+ D + + + + P + P + D + +W + F++ L +Y
Sbjct: 89 FHVLVASQDFVESVLVRTILPKNNPPTIVHDKVL--NLIQSW-ADAFRSSPDLTGVVTIY 145
Query: 199 KRLKSAG 205
+ L+ G
Sbjct: 146 EDLRRKG 152
>1mhq_A ADP-ribosylation factor binding protein GGA2; super helix, protein
transport; 2.20A {Homo sapiens} SCOP: a.118.9.2
Length = 148
Score = 26.8 bits (59), Expect = 5.1
Identities = 22/130 (16%), Positives = 44/130 (33%), Gaps = 24/130 (18%)
Query: 90 EEDIAFMSVLELGALIRTKQITSEELTRIFLKRLKRYNP--------ALEAVVTYTDELA 141
E+D + + + T + +++ LE + + E
Sbjct: 16 EQDWSAI--QNFCEQVNTDPNGPTHAPWLLAHKIQSPQEKEALYALTVLEMCMNHCGEKF 73
Query: 142 YQQ-AKEA--DEL--LAQGKYLGPLHGIPYGLKD-IIAVPQYKTTWGSTTFKNQVLNTEA 195
+ + AK +EL + KYLG +K +I + +W + F + +
Sbjct: 74 HSEVAKFRFLNELIKVLSPKYLGSW--ATGKVKGRVIEILF---SW-TVWFPEDIKIRD- 126
Query: 196 WVYKRLKSAG 205
Y+ LK G
Sbjct: 127 -AYQMLKKQG 135
>1x5b_A Signal transducing adaptor molecule 2; VHS domain, ubiquitin
binding, STAM2, structural genomics, NPPSFA; NMR {Homo
sapiens} PDB: 2l0t_B
Length = 163
Score = 26.4 bits (58), Expect = 6.4
Identities = 16/125 (12%), Positives = 45/125 (36%), Gaps = 16/125 (12%)
Query: 90 EEDIAFMSVLELGALIRTKQITSEELTRIFLKRLKRYNP--ALEAVVTYTDELA------ 141
ED + + +++ + + +++ + +KR+ P AL+A +T
Sbjct: 30 TEDWSLI--MDICDKVGSTPNGAKDCLKAIMKRVNHKVPHVALQA-LTLLGACVANCGKI 86
Query: 142 YQQAKEADELLAQGKYLGPLHGIPYGLKDIIAVPQYKTTWGSTTFKNQV-LNTEAWVYKR 200
+ + + + + + P + + ++ W S F+ + + K
Sbjct: 87 FHLEVCSRDFATEVRAVIKNKAHPKVCEKLKSLMV---EW-SEEFQKDPQFSLISATIKS 142
Query: 201 LKSAG 205
+K G
Sbjct: 143 MKEEG 147
>1fc3_A SPO0A; response regulator, signaling protein; 2.00A {Geobacillus
stearothermophilus} SCOP: a.4.6.3 PDB: 1lq1_A
Length = 120
Score = 25.6 bits (56), Expect = 8.7
Identities = 10/34 (29%), Positives = 14/34 (41%)
Query: 64 WGTEQEQEASKIFNYPSISDIQKPENEEDIAFMS 97
W + S +F Y KP N E IA ++
Sbjct: 77 WSRGNLESISSLFGYTVSVSKAKPTNSEFIAMVA 110
>1xti_A Probable ATP-dependent RNA helicase P47; alpha-beta fold, gene
regulation; 1.95A {Homo sapiens} SCOP: c.37.1.19
c.37.1.19 PDB: 1xtj_A* 1xtk_A
Length = 391
Score = 26.8 bits (60), Expect = 8.7
Identities = 12/40 (30%), Positives = 20/40 (50%), Gaps = 4/40 (10%)
Query: 133 VVTYTDELAYQQAKEADELLAQGKYLGPLHGIP-YGLKDI 171
V+ +T ELA+Q +KE + KY+ + +G I
Sbjct: 81 VMCHTRELAFQISKEYERF---SKYMPNVKVAVFFGGLSI 117
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
0.316 0.133 0.392
Gapped
Lambda K H
0.267 0.0515 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,973,942
Number of extensions: 238432
Number of successful extensions: 528
Number of sequences better than 10.0: 1
Number of HSP's gapped: 503
Number of HSP's successfully gapped: 29
Length of query: 259
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 167
Effective length of database: 4,133,061
Effective search space: 690221187
Effective search space used: 690221187
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 (21.6 bits)
S2: 56 (25.8 bits)