RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy18161
(209 letters)
>2wp7_A PPPDE peptidase domain-containing protein 2; hydrolase,
phosphoprotein, ubiquitin-like protein; 1.90A {Mus
musculus} PDB: 3ebq_A
Length = 168
Score = 133 bits (335), Expect = 9e-40
Identities = 42/184 (22%), Positives = 68/184 (36%), Gaps = 51/184 (27%)
Query: 5 PILLNVYDML-WTNDYTSTLGLG-----VFHSGIEVYGVEYAYGGHQYPFSGIFRISPRD 58
P+ L VYD+ S + LG ++H+ I V+ E+ +G GI +P
Sbjct: 8 PVKLYVYDLSKGLARRLSPIMLGKQLEGIWHTSIVVHKDEFFFGSS-----GISSCTPGG 62
Query: 59 AKELGEQFAFRESIQIGSTDFTESDVKRIVTELGKEYRGDRYHLMNKGESIQIGSTDFTE 118
+ +G+T+ TE ++ LG+
Sbjct: 63 T----LLGPPDSVVDVGNTEVTEEIFLEYLSSLGES------------------------ 94
Query: 119 SDVKRIVTELGKEYRGDRYHLMNKNCNHFSNELTKILCGQEIPGWVNRLAYFSSCVPFLQ 178
+RG+ Y+L NCN FSNE+ + L G++IP ++ L PF Q
Sbjct: 95 ------------LFRGEAYNLFEHNCNTFSNEVAQFLTGRKIPSYITDLPSEVLSTPFGQ 142
Query: 179 RCLP 182
P
Sbjct: 143 ALRP 146
>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 = 42.1 bits (98), Expect = 6e-05
Identities = 30/190 (15%), Positives = 58/190 (30%), Gaps = 58/190 (30%)
Query: 5 PILLNVY-----DMLWTNDYTSTLGLGVFHSGIEVYGVEYAYGGHQYPFSGIFRISPRDA 59
P L++ D L T D + + IE S + + P +
Sbjct: 327 PRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIE---------------SSLNVLEPAEY 371
Query: 60 KELGEQFA-FRESIQIGS-------TDFTESDVKRIVTEL------GKEYRGDRYHLMNK 105
+++ ++ + F S I + D +SDV +V +L K+ + +
Sbjct: 372 RKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIP-- 429
Query: 106 GESIQIGSTDFTESDV---KRIVT--ELGKEYRGDR---------------YHLMNKNCN 145
SI + E++ + IV + K + D +HL N
Sbjct: 430 --SIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHP 487
Query: 146 HFSNELTKIL 155
+
Sbjct: 488 ERMTLFRMVF 497
>4dot_A Group XVI phospholipase A2; alpha/beta fold,
phospholipase/acyltransferase, phosphatidyl
phosphatidylethanolamine, membrane, hydrolase; 1.96A
{Homo sapiens}
Length = 140
Score = 31.6 bits (71), Expect = 0.088
Identities = 20/128 (15%), Positives = 43/128 (33%), Gaps = 22/128 (17%)
Query: 25 LGVFHSGIEVYGVEYAYGGHQYPFSGIFRISPRDAKELGEQFAFRESIQIGS-TDFTESD 83
+ +F + + Y G+ + ++ A + + ++ D SD
Sbjct: 14 IEIFRPFYRHWAI-YVGDGYVVHLAPPSEVAGAGAASVMSALTDKAIVKKELLYDVAGSD 72
Query: 84 VKRIVTELGKEYRGDRYHLMNKGESIQIGSTDFTESDVKRIVTELGKEYRGDRYHLMNKN 143
++ + +Y + ++R +G+E Y L ++N
Sbjct: 73 KYQVNNKHDDKYSPLPCSKI-----------------IQRAEELVGQE---VLYKLTSEN 112
Query: 144 CNHFSNEL 151
C HF NEL
Sbjct: 113 CEHFVNEL 120
>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 = 30.8 bits (69), Expect = 0.32
Identities = 20/118 (16%), Positives = 33/118 (27%), Gaps = 49/118 (41%)
Query: 31 GIEVYGVEYAYGGHQYPFSGIFRISPRDAKELGE-----QFAFRESIQIGSTDFTESDVK 85
G+ +A GH S LGE A +
Sbjct: 1751 GLIPADATFA--GH----------S------LGEYAALASLA-------DVMSI--ESLV 1783
Query: 86 RIVTELGKEYRGD-RYHLMNKGE---------SIQIGS--TDFTESDVKRIVTELGKE 131
+V YRG + + E +I G F++ ++ +V +GK
Sbjct: 1784 EVV-----FYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKR 1836
Score = 30.8 bits (69), Expect = 0.35
Identities = 20/107 (18%), Positives = 34/107 (31%), Gaps = 43/107 (40%)
Query: 27 VF--HS-GIEVYGVEY----AYGGHQYPFS---------GIF--RISPRDAKELGEQ--- 65
F HS G EY + G+ PRD ELG
Sbjct: 1758 TFAGHSLG------EYAALASLAD-VMSIESLVEVVFYRGMTMQVAVPRD--ELGRSNYG 1808
Query: 66 -FAFRESIQIGSTDFTESDVKRIVTELGKEYRGDRYHLMNKGESIQI 111
A ++ ++ F++ ++ +V +GK G ++I
Sbjct: 1809 MIAINPG-RVAAS-FSQEALQYVVERVGKR----------TGWLVEI 1843
Score = 29.6 bits (66), Expect = 0.90
Identities = 37/235 (15%), Positives = 65/235 (27%), Gaps = 82/235 (34%)
Query: 47 PFS---GIFRIS---PRD----AKELGEQFAFRESIQIGSTDFTESDVKRIVTELGKEYR 96
P + G P A +L EQF + + + F D EL ++
Sbjct: 8 PLTLSHGSLEHVLLVPTASFFIASQLQEQFN--KILPEPTEGFAADDEPTTPAELVGKFL 65
Query: 97 GDRYHLMNKGESIQIGSTD---------FTES-----DVKRIVTELGKEYRGDR------ 136
G ++ + E ++G D F D+ + +L +E
Sbjct: 66 G---YVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKEL 122
Query: 137 ---Y----HLMNKNCNHFSN------------ELTKILCGQ--------EI-------PG 162
Y + + + SN +L I GQ E+
Sbjct: 123 IKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHV 182
Query: 163 WV--------NRLAYFSSCVPFLQRCLPK-----EWLTPDALTQSINYSMSSDTS 204
V L+ ++ + EWL + T +Y +S S
Sbjct: 183 LVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPIS 237
Score = 29.2 bits (65), Expect = 1.2
Identities = 24/124 (19%), Positives = 36/124 (29%), Gaps = 30/124 (24%)
Query: 75 GSTDFTESDVKRIVTELGKEYRGDRYHLMNKGESIQIGSTDFTESDVKRIV----TELGK 130
G + S + V R D + G SI D ++ + E GK
Sbjct: 1632 GMDLYKTSKAAQDVWN-----RADNHFKDTYGFSI----LDIVINNPVNLTIHFGGEKGK 1682
Query: 131 EYRGDRYHLMN-KNCNHFSNELTKILCGQEIPGWVNRLAYFSSCVPFLQRCLPKEWLTPD 189
R + Y M + + KI +EI + S K L+
Sbjct: 1683 RIR-ENYSAMIFETIVDGKLKTEKIF--KEINEHSTSYTFRS----------EKGLLS-- 1727
Query: 190 ALTQ 193
TQ
Sbjct: 1728 -ATQ 1730
>4dpz_X HRAS-like suppressor 2; alpha/beta fold, enzyme phospholipid
acyltransferase, hydrol transferase; 1.25A {Homo
sapiens} PDB: 2kyt_A
Length = 137
Score = 29.6 bits (66), Expect = 0.34
Identities = 22/128 (17%), Positives = 39/128 (30%), Gaps = 22/128 (17%)
Query: 25 LGVFHSGIEVYGVEYAYGGHQYPFSGIFRISPRDAKELGEQFAFRESIQIGS-TDFTESD 83
+ + G + + Y G+ + I+ A + + ++ + D
Sbjct: 14 IEISRFGYAHWAI-YVGDGYVVHLAPASEIAGAGAASVLSALTNKAIVKKELLSVVAGGD 72
Query: 84 VKRIVTELGKEYRGDRYHLMNKGESIQIGSTDFTESDVKRIVTELGKEYRGDRYHLMNKN 143
R+ + Y I VKR +G+E Y L + N
Sbjct: 73 NYRVNNKHDDRYTPLP------SNKI-----------VKRAEELVGQELP---YSLTSDN 112
Query: 144 CNHFSNEL 151
C HF N L
Sbjct: 113 CEHFVNHL 120
>3pdi_B Nitrogenase MOFE cofactor biosynthesis protein NI; nitrogenase
cofactor maturation, NIFB, nifdk, NIFH; HET: CZL; 2.40A
{Azotobacter vinelandii}
Length = 458
Score = 28.6 bits (64), Expect = 1.8
Identities = 13/73 (17%), Positives = 26/73 (35%), Gaps = 14/73 (19%)
Query: 68 FRESIQIGSTDFTESDV-----KRIVTELGKEYRGDRYHLMNKGESIQIGSTDFTE---S 119
FRE + + +T + + +V L +R I + +T +E
Sbjct: 56 FREPVPLQTTAMDQVSSVMGADENVVEALKTIC--ERQ----NPSVIGLLTTGLSETQGC 109
Query: 120 DVKRIVTELGKEY 132
D+ + E +Y
Sbjct: 110 DLHTALHEFRTQY 122
>3u7q_B Nitrogenase molybdenum-iron protein beta chain; multiple rossmann
fold domains, reductase, nitrogen fixing,
oxidoreductase; HET: HCA ICS 1CL CLF; 1.00A {Azotobacter
vinelandii} PDB: 1fp4_B* 1g21_B* 1g20_B* 1m1n_B* 1l5h_B*
1m1y_B* 1m34_B* 1n2c_B* 2afh_B* 2afi_B* 2afk_B* 2min_B*
3k1a_B* 3min_B*
Length = 523
Score = 28.2 bits (63), Expect = 2.0
Identities = 17/90 (18%), Positives = 28/90 (31%), Gaps = 15/90 (16%)
Query: 68 FRESIQIGSTDFTESDV-----KRIVTELGKEYRGDRYHLMNKGESIQIGSTDFTE---S 119
FRE + S TE + + L Y K + I + +T E
Sbjct: 107 FREPVSCVSDSMTEDAAVFGGQQNMKDGLQNCK--ATY----KPDMIAVSTTCMAEVIGD 160
Query: 120 DVKRIVTELGKEY-RGDRYHLMNKNCNHFS 148
D+ + KE D + + + F
Sbjct: 161 DLNAFINNSKKEGFIPDEFPVPFAHTPSFV 190
>1qgu_B Protein (nitrogenase molybdenum iron protein); biological nitrogen
fixation, nitrogen metabolism, molybdoenzymes, electron
transfer; HET: HCA CFM CLF; 1.60A {Klebsiella
pneumoniae} SCOP: c.92.2.3 PDB: 1h1l_B* 1qh1_B* 1qh8_B*
Length = 519
Score = 28.2 bits (63), Expect = 2.3
Identities = 15/73 (20%), Positives = 23/73 (31%), Gaps = 14/73 (19%)
Query: 68 FRESIQIGSTDFTESDV-----KRIVTELGKEYRGDRYHLMNKGESIQIGSTDFTE---S 119
F+E I S TE + L Y K E I + +T E
Sbjct: 105 FKEPIACVSDSMTEDAAVFGGNNNMNLGLQNAS--ALY----KPEIIAVSTTCMAEVIGD 158
Query: 120 DVKRIVTELGKEY 132
D++ + K+
Sbjct: 159 DLQAFIANAKKDG 171
>1mio_B Nitrogenase molybdenum iron protein (beta chain); HET: HCA CFM CLP;
3.00A {Clostridium pasteurianum} SCOP: c.92.2.3
Length = 458
Score = 27.3 bits (61), Expect = 4.2
Identities = 12/73 (16%), Positives = 26/73 (35%), Gaps = 14/73 (19%)
Query: 68 FRESIQIGSTDFTESDV-----KRIVTELGKEYRGDRYHLMNKGESIQIGSTDFTE---S 119
F+E ++ FTE I T + + Y + I + +T +E
Sbjct: 60 FKEPAMASTSSFTEGASVFGGGSNIKTAVKNIF--SLY----NPDIIAVHTTCLSETLGD 113
Query: 120 DVKRIVTELGKEY 132
D+ ++++
Sbjct: 114 DLPTYISQMEDAG 126
>3r6u_A Choline-binding protein; substrate binding protein,
ABC-transporter, extracellular, transport protein; 1.61A
{Bacillus subtilis} PDB: 3ppq_A 3ppo_A* 3ppp_A 3ppn_A
3ppr_A*
Length = 284
Score = 26.8 bits (59), Expect = 5.3
Identities = 6/29 (20%), Positives = 15/29 (51%), Gaps = 3/29 (10%)
Query: 104 NKGESIQIGSTDFTESDVKRIVTELGKEY 132
++I+IG+ +ES+ I+ + +
Sbjct: 9 AADQTIKIGAQSMSESE---IIASMLGQL 34
>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC,
structural GE consortium, hydrolase; HET: AMP; 2.20A
{Homo sapiens}
Length = 417
Score = 26.7 bits (60), Expect = 5.8
Identities = 10/42 (23%), Positives = 18/42 (42%), Gaps = 2/42 (4%)
Query: 133 RGDRYHLMNKNCNHFSNELTKIL--CGQEIPGWVNRLAYFSS 172
G N+ + + +L +L QE+P W+ +AY
Sbjct: 373 LGLATSFFNERNINITKDLLDLLVEAKQEVPSWLENMAYEHH 414
>3o66_A Glycine betaine/carnitine/choline ABC transporter; structural
genomics, PSI-2, protein structure initiative; HET: PGE;
1.86A {Staphylococcus aureus subsp}
Length = 282
Score = 26.4 bits (58), Expect = 6.2
Identities = 10/67 (14%), Positives = 24/67 (35%), Gaps = 5/67 (7%)
Query: 70 ESIQIGSTDFTESDVKRIVTELGKEY-RGDRYHLMNKGESIQIGSTDFTESDVKR-IVTE 127
++I + +ES I++ + + D + + +GS+ + +
Sbjct: 9 NDVKITALSTSESQ---IISHMLRLLIEHDTHGKIKPTLVNNLGSSTIQHNALINGDANI 65
Query: 128 LGKEYRG 134
G Y G
Sbjct: 66 SGVRYNG 72
>3u7q_A Nitrogenase molybdenum-iron protein alpha chain; multiple rossmann
fold domains, reductase, nitrogen fixing,
oxidoreductase; HET: HCA ICS 1CL CLF; 1.00A {Azotobacter
vinelandii} PDB: 1g21_A* 1g20_A* 1fp4_A* 1m1n_A* 1l5h_A*
1m1y_A* 1m34_A* 1n2c_A* 2afh_A* 2afi_A* 2afk_A* 2min_A*
3min_A* 3k1a_A* 1h1l_A* 1qgu_A* 1qh1_A* 1qh8_A*
Length = 492
Score = 26.7 bits (59), Expect = 6.2
Identities = 10/68 (14%), Positives = 24/68 (35%), Gaps = 19/68 (27%)
Query: 76 STDFTESDV--------KRIVTELGKEYRGDRYHLMNKGESIQIGSTDFTE---SDVKRI 124
++DF E D+ +++ E+ + ++ I + S D++ +
Sbjct: 115 TSDFQEKDIVFGGDKKLAKLIDEVETLFPLNKG--------ISVQSECPIGLIGDDIESV 166
Query: 125 VTELGKEY 132
G E
Sbjct: 167 SKVKGAEL 174
>1sw5_A Osmoprotection protein (PROX); binding-protein, compatible solutes,
cation-PI interactions, classical hydrogen bonds,
protein binding; 1.80A {Archaeoglobus fulgidus} SCOP:
c.94.1.1 PDB: 1sw4_A 1sw1_A 1sw2_A 3mam_A*
Length = 275
Score = 26.3 bits (58), Expect = 7.2
Identities = 6/18 (33%), Positives = 8/18 (44%)
Query: 104 NKGESIQIGSTDFTESDV 121
E + IGS F E +
Sbjct: 3 QSSERVVIGSKPFNEQYI 20
>2jgn_A DBX, DDX3, ATP-dependent RNA helicase DDX3X; phosphorylation,
nucleotide-binding, hydrolase, RNA-binding, ATP-binding,
DNA-binding, nuclear protein; 1.91A {Homo sapiens}
Length = 185
Score = 26.0 bits (58), Expect = 8.2
Identities = 9/36 (25%), Positives = 17/36 (47%), Gaps = 2/36 (5%)
Query: 139 LMNKNCNHFSNELTKIL--CGQEIPGWVNRLAYFSS 172
N+ + + +L +L QE+P W+ +AY
Sbjct: 149 FFNERNINITKDLLDLLVEAKQEVPSWLENMAYEHH 184
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
0.318 0.136 0.412
Gapped
Lambda K H
0.267 0.0639 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,241,258
Number of extensions: 187641
Number of successful extensions: 430
Number of sequences better than 10.0: 1
Number of HSP's gapped: 422
Number of HSP's successfully gapped: 23
Length of query: 209
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 120
Effective length of database: 4,216,824
Effective search space: 506018880
Effective search space used: 506018880
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 (25.2 bits)