RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16696
(296 letters)
>3bk6_A PH stomatin; archaea, trimer, coiled- coil, flotillin, SPFH,
membrane fusion, trafficking, transmembrane, membrane
protein; 3.20A {Pyrococcus horikoshii}
Length = 188
Score = 164 bits (417), Expect = 1e-50
Identities = 60/161 (37%), Positives = 96/161 (59%), Gaps = 5/161 (3%)
Query: 98 IIDKIKYVQSLKEIAIDVPQQSAITSDNVTLSIDGVLYLKINDPYLASYGVEDPEFAITQ 157
I +K V L+ +DVP Q IT DNV + ++ V+Y ++ DP A V++ A +Q
Sbjct: 2 IFEKAVIV-DLRTQVLDVPVQETITKDNVPVRVNAVVYFRVVDPVKAVTQVKNYIMATSQ 60
Query: 158 LAQTTMRSELGKISLDKVFRERESLNESIVHAINNASEAWGITCLRYEIRDIKLPSRVNE 217
++QTT+RS +G+ LD++ ER+ LN + I+ A++ WGI EI+D++LP+ + +
Sbjct: 61 ISQTTLRSVIGQAHLDELLSERDKLNMQLQRIIDEATDPWGIKVTAVEIKDVELPAGMQK 120
Query: 218 AMQMQVEAERKKRAAILESEGIRAADINVAEGKRQAKILEA 258
AM Q EAER++RA I +E R A AE R+A + +
Sbjct: 121 AMARQAEAERERRARITLAEAERQA----AEKLREAAEIIS 157
>2rpb_A Hypothetical membrane protein; SPFH domain; NMR {Pyrococcus
horikoshii}
Length = 113
Score = 151 bits (383), Expect = 2e-46
Identities = 39/106 (36%), Positives = 62/106 (58%)
Query: 107 SLKEIAIDVPQQSAITSDNVTLSIDGVLYLKINDPYLASYGVEDPEFAITQLAQTTMRSE 166
L+E IDVP Q I DNV +++D V+Y ++ DP A Y V D AI +LAQT +R+
Sbjct: 6 DLREHVIDVPPQEVICKDNVVVTVDAVVYYQVIDPVKAVYNVSDFLMAIVKLAQTNLRAI 65
Query: 167 LGKISLDKVFRERESLNESIVHAINNASEAWGITCLRYEIRDIKLP 212
+G++ LD+ R+ +N + ++ ++ WG+ R EI+ I P
Sbjct: 66 IGEMELDETLSGRDIINARLREELDKITDRWGVKITRVEIQRIDPP 111
>4fvg_A Stomatin; mixed alpha-beta fold, membrane scaffold, membrane
protein; 1.80A {Mus musculus} PDB: 4fvj_A 4fvf_A
Length = 133
Score = 149 bits (379), Expect = 1e-45
Identities = 45/132 (34%), Positives = 79/132 (59%), Gaps = 1/132 (0%)
Query: 94 ILIPIIDKIKYVQSLKEIAIDVPQQSAITSDNVTLSIDGVLYLKINDPYLASYGVEDPEF 153
+ P D V ++ I+ D+P Q +T D+VT+S+DGV+Y ++ + LA + + +
Sbjct: 3 LGSPSTDSAAKV-DMRTISFDIPPQEVLTKDSVTISVDGVVYYRVQNATLAVANITNADS 61
Query: 154 AITQLAQTTMRSELGKISLDKVFRERESLNESIVHAINNASEAWGITCLRYEIRDIKLPS 213
A LAQTT+R+ LG +L ++ +RE + + +++A++ WGI R EI+D+KLP
Sbjct: 62 ATRLLAQTTLRNALGTKNLSQILSDREEIAHHMQSTLDDATDDWGIKVERVEIKDVKLPV 121
Query: 214 RVNEAMQMQVEA 225
++ AM + EA
Sbjct: 122 QLQRAMAAEAEA 133
>1win_A Flotillin 2; BAND 7 domain, structural genomics, riken structural
genomics/proteomics initiative, RSGI, cell adhesion; NMR
{Mus musculus} SCOP: d.43.2.1
Length = 143
Score = 102 bits (255), Expect = 3e-27
Identities = 22/131 (16%), Positives = 54/131 (41%), Gaps = 9/131 (6%)
Query: 107 SLKEIAIDVPQQSAITSDNVTLSIDGVLYLKINDPY---------LASYGVEDPEFAITQ 157
SL+ + + + T++ V L++ GV +KI V+D + + Q
Sbjct: 11 SLEIMTLQPRCEDVETAEGVALTVTGVAQVKIMTEKELLAVACEQFLGKNVQDIKNVVLQ 70
Query: 158 LAQTTMRSELGKISLDKVFRERESLNESIVHAINNASEAWGITCLRYEIRDIKLPSRVNE 217
+ +RS LG +++++++++R+ + + GI L + I+D+
Sbjct: 71 TLEGHLRSILGTLTVEQIYQDRDQFAKLVREVAAPDVGRMGIEILSFTIKDVYDKVDYLS 130
Query: 218 AMQMQVEAERK 228
++ +
Sbjct: 131 SLGKTQTSGPS 141
>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 = 55.6 bits (133), Expect = 7e-09
Identities = 46/370 (12%), Positives = 106/370 (28%), Gaps = 125/370 (33%)
Query: 2 CTTPVATALLSVAEA-------------------RAKSLDLVAKALETKDGRSAASLSIA 42
C + T V + + L+ K L+ + L
Sbjct: 266 CKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCR----PQDLP-- 319
Query: 43 EQYVKAFNELAKTNNTLIVPSDANNIASMV------TQAWVVERMGKYHRILEPGLNILI 96
T N + + IA + W K I+E LN+L
Sbjct: 320 --------REVLTTNPRRL----SIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLE 367
Query: 97 PIIDKIKYVQSLKEIAI---DVPQQSAITSDNVTLSIDGVLYLKINDPYLASYGVEDPEF 153
P + + +++ I + LS+ + + D
Sbjct: 368 PAEYRKMF----DRLSVFPPSAH----IPTI--LLSL-----IWFDVIK------SDVMV 406
Query: 154 AITQLAQTTM---RSELGKISLDKVFRE--RESLNESIVHA-------INNASEAWGITC 201
+ +L + ++ + + IS+ ++ E + NE +H I ++ +
Sbjct: 407 VVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIP 466
Query: 202 LR----------YEIRDIKLPSRVNEA---------MQMQVEAE---------------- 226
+ +++I+ P R+ ++ ++ +
Sbjct: 467 PYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQ 526
Query: 227 -RKKRAAILESEGIRAADINVAEG--KRQAKILEAAKYLCKLLIKRAAILESEGIRAADI 283
+ + I +++ +N + + L +KY L++ A + E E I
Sbjct: 527 LKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTD--LLRIALMAEDEAI----- 579
Query: 284 NVAEGKRQAK 293
E +Q +
Sbjct: 580 -FEEAHKQVQ 588
Score = 49.1 bits (116), Expect = 1e-06
Identities = 35/275 (12%), Positives = 76/275 (27%), Gaps = 58/275 (21%)
Query: 21 LDLVAKALETKDGRSAASLSIAEQYVKAFNELAKTNNTLIVPSDANNIASMVTQAWVVER 80
D + KD + K+ + ++ ++ + + W +
Sbjct: 26 EDAFVDNFDCKD---------VQDMPKSILSKEEIDHIIMSKDAVSGTLRLF---WTLLS 73
Query: 81 MGK--YHRILEPGLNI-------------LIPIIDKIKYVQSLKEIAIDVPQQSAITSDN 125
+ + +E L I P + Y++ + D N
Sbjct: 74 KQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQ---VFAKYN 130
Query: 126 VT-----LSIDGVLY-LKINDPYLASYGVEDPEFAITQLAQTTMRSELGKISLD-KVF-- 176
V+ L + L L+ + GV T +A S + +D K+F
Sbjct: 131 VSRLQPYLKLRQALLELR-PAKNVLIDGV--LGSGKTWVALDVCLSYKVQCKMDFKIFWL 187
Query: 177 --RERESLNESIVHAINNASEAWGITCLRYEIRDIKLPSRVNEAMQMQVEAERKKRAAIL 234
+ S E+++ + + + + + + R +
Sbjct: 188 NLKNCNS-PETVLEMLQK-------LLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLK 239
Query: 235 ESEGIRAADI--NVAEGKRQAKILEAAKYLCKLLI 267
+ NV + AK A CK+L+
Sbjct: 240 SKPYENCLLVLLNV----QNAKAWNAFNLSCKILL 270
>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 = 49.7 bits (118), Expect = 8e-07
Identities = 49/337 (14%), Positives = 108/337 (32%), Gaps = 98/337 (29%)
Query: 23 LVAKALETKDGRSAASLSIAEQYVKAFN----ELAKTNNTLIVPSDANNIASMVTQ---- 74
L AK L+ D + + + Y+ A K +N+ + + A +V
Sbjct: 104 LAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQ 163
Query: 75 ----AWVVERMGKYHRILEPGLNILIPIIDKIKYVQSLKEIAIDVPQQSAITSDNVTLSI 130
+ E + ++ ++ +I ++L E+ + + +
Sbjct: 164 GNTDDYFEE-LRDLYQTYHV---LVGDLIKFS--AETLSELIRTTLDAEKVFTQ----GL 213
Query: 131 DGVLYLKI-----NDPYLASYGVEDPEFAITQLAQ--TTMRSELGKISLDKVFRERESL- 182
+ + +L+ + YL S + P + QLA T + LG + ++ +
Sbjct: 214 NILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKL-LG-FTPGELRSYLKGAT 271
Query: 183 --NESIVHAI------------NNASEA-----W-GITCLR-YEIRDIKLPSRVNEAMQ- 220
++ +V A+ + +A + G+ C Y + PS + ++++
Sbjct: 272 GHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLP-PSILEDSLEN 330
Query: 221 -------M---------QVEAERKKRAAIL-ESEGIRAADINVAEGKRQ------AKILE 257
M QV+ K + L + + + +N G + + L
Sbjct: 331 NEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVN---GAKNLVVSGPPQSLY 387
Query: 258 AAKYLCKLLIKRAAILESEGIRAADINVAEGKRQAKI 294
L L K A G Q++I
Sbjct: 388 G---LNLTLRKAKA--------------PSGLDQSRI 407
Score = 41.6 bits (97), Expect = 3e-04
Identities = 28/159 (17%), Positives = 55/159 (34%), Gaps = 61/159 (38%)
Query: 8 TALLSVAEA------------RAKSLDLVAKALE-TKDGRS----AA------SLSIAEQ 44
AL S+A+ R + A+ + GRS A + S +++
Sbjct: 1768 AALASLADVMSIESLVEVVFYRGM---TMQVAVPRDELGRSNYGMIAINPGRVAASFSQE 1824
Query: 45 YVKAFNE-LAKTNNTLIVPSDAN-NIASMVTQAWVVERMGKYHRI---LEPGLNILIPII 99
++ E + K L+ N N+ + Q V L L+ + ++
Sbjct: 1825 ALQYVVERVGKRTGWLVEI--VNYNVENQ--Q--YV--------AAGDLR-ALDTVTNVL 1869
Query: 100 DKIKYVQSLKEIAIDVPQQSAITSDNVTLSIDGV---LY 135
+ IK +Q + I + +LS++ V L+
Sbjct: 1870 NFIK-LQKIDIIEL-----------QKSLSLEEVEGHLF 1896
Score = 30.0 bits (67), Expect = 1.1
Identities = 30/149 (20%), Positives = 58/149 (38%), Gaps = 31/149 (20%)
Query: 157 QLAQTT-MRSELGKISLDKVFRE---------RESLNESIVHAI-NNASEAWGITCLRYE 205
Q +Q M +L K S K ++ +++ SI+ + NN +T
Sbjct: 1624 QGSQEQGMGMDLYKTS--KAAQDVWNRADNHFKDTYGFSILDIVINNPVN---LTIHFGG 1678
Query: 206 IRDIKLPSRVN-EAMQMQVEAERKKRA-AILESEGIRAADINVAEGKRQAKILEAAKY-- 261
+ ++ R N AM + + K + I + + + +L A ++
Sbjct: 1679 EKGKRI--RENYSAMIFETIVDGKLKTEKIFKEINEHSTSY-TFRS--EKGLLSATQFTQ 1733
Query: 262 --LCKLLIKRAA--ILESEGIRAADINVA 286
L L+++AA L+S+G+ AD A
Sbjct: 1734 PAL--TLMEKAAFEDLKSKGLIPADATFA 1760
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 31.7 bits (71), Expect = 0.16
Identities = 12/48 (25%), Positives = 22/48 (45%), Gaps = 6/48 (12%)
Query: 215 VNEAMQMQVEAE--RKKRAAILESEGIRAADINVAEGKRQAKILEAAK 260
+ +A ++ E E RK R E + R +++ A + + E AK
Sbjct: 74 IAQADRLTQEPESIRKWR----EEQRKRLQELDAASKVMEQEWREKAK 117
>3ihj_A Alanine aminotransferase 2; helix, structural genomics, structural
genomics consortium, pyridoxal phosphate; HET: PLP;
2.30A {Homo sapiens}
Length = 498
Score = 30.9 bits (70), Expect = 0.47
Identities = 23/146 (15%), Positives = 48/146 (32%), Gaps = 23/146 (15%)
Query: 110 EIAIDVPQQSAITSDNVTLSIDGVLYLKINDPYLASYGVEDPEFAITQLAQTTMRSELGK 169
I + + + V+ I D + G + F +A T + L
Sbjct: 42 PIVLKAGEIELELQRGIKKPFTEVIRANIGDA--QAMGQQPITFLRQVMALCTYPNLLDS 99
Query: 170 --ISLDKVFRERESLNESIVHAINNASEAWGITCLRYEI------RDIKLPSRVNE---- 217
D R R L +++ + S + G+ C+R ++ RD +P+ +
Sbjct: 100 PSFPEDAKKRARRILQACGGNSLGSYSASQGVNCIREDVAAYITRRDGGVPADPDNIYLT 159
Query: 218 ---------AMQMQVEAERKKRAAIL 234
+++ V K R ++
Sbjct: 160 TGASDGISTILKILVSGGGKSRTGVM 185
>3mn8_A LP15968P; catalytic domain of alpha/beta-hydrolase fold,
C-terminal, A transthyretin-like domain, hydrolase; HET:
NAG GEM; 2.70A {Drosophila melanogaster}
Length = 435
Score = 29.9 bits (67), Expect = 1.1
Identities = 13/65 (20%), Positives = 21/65 (32%), Gaps = 2/65 (3%)
Query: 82 GKYHRILEPGLNILIPIIDKIKYVQSLKEIAIDVPQQSAITSDNVTLSIDGVLYLKINDP 141
G+Y R+L PGL + Y S + + L+ + I+
Sbjct: 372 GEYWRLLTPGLYSV--HASAFGYQTSAPQQVRVTNDNQEALRLDFKLAPVETNFDGISSF 429
Query: 142 YLASY 146
Y Y
Sbjct: 430 YSPYY 434
>2zuo_A MVP, major vault protein; repeat domains, protein-protein complex,
cytoplasm, ribonucleoprotein, structural protein; 3.50A
{Rattus norvegicus} PDB: 2zv4_N 2zv5_a 2qzv_A
Length = 861
Score = 29.4 bits (65), Expect = 1.7
Identities = 18/82 (21%), Positives = 35/82 (42%), Gaps = 9/82 (10%)
Query: 217 EAMQMQVEAERKKRAAILESEGIRAADINVAEGKRQAKI--LEAAKYLCKLLIKRAAILE 274
+A+ ++ EAE ++ + E E I A E + ++ +EA K+ +
Sbjct: 749 QALAIETEAELERVKKVREMELIYARAQLELEVSKAQQLANVEAKKF-------KEMTEA 801
Query: 275 SEGIRAADINVAEGKRQAKILE 296
D+ VA + Q K+L+
Sbjct: 802 LGPGTIRDLAVAGPEMQVKLLQ 823
Score = 27.9 bits (61), Expect = 5.7
Identities = 18/81 (22%), Positives = 33/81 (40%), Gaps = 5/81 (6%)
Query: 214 RVNEAMQMQVEAERKKRAAILESEGIRAADINVAEGKRQAKILEAAKYLCKLLIKRAAIL 273
V + EAE + AA +E E + A+ K QA +E L ++ R L
Sbjct: 715 AVESTGNAKAEAESRAEAARIEGE----GSVLQAKLKAQALAIETEAELERVKKVREMEL 770
Query: 274 ESEGIRAADINVAEGKRQAKI 294
++ V++ ++ A +
Sbjct: 771 IYA-RAQLELEVSKAQQLANV 790
>1n71_A AAC(6')-II; aminoglycoside 6'-N-acetyltransferase, antibiotic
resistance, coenzyme A; HET: COA; 1.80A {Enterococcus
faecium} SCOP: d.108.1.1 PDB: 2a4n_A* 1b87_A*
Length = 180
Score = 28.2 bits (62), Expect = 2.6
Identities = 14/59 (23%), Positives = 24/59 (40%)
Query: 6 VATALLSVAEARAKSLDLVAKALETKDGRSAASLSIAEQYVKAFNELAKTNNTLIVPSD 64
+ T L++ E S + L T D +LS + Y F+++A N P +
Sbjct: 87 IGTRLVNYLEKEVASRGGITIYLGTDDLDHGTTLSQTDLYEHTFDKVASIQNLREHPYE 145
>3tcm_A Alanine aminotransferase 2; pyridoxal phosphate (PLP)-binding; HET:
DCS; 2.71A {Hordeum vulgare}
Length = 500
Score = 28.6 bits (64), Expect = 2.9
Identities = 23/95 (24%), Positives = 35/95 (36%), Gaps = 8/95 (8%)
Query: 118 QSAITSDNVTLSIDGVLYLKINDPYLASYGVEDPEFAITQLAQTTMRSELGKISLDKVF- 176
Q + + +L D +LY I +P S G + F LA L + + +F
Sbjct: 51 QEQLKTQPGSLPFDEILYCNIGNP--QSLGQQPVTFFREVLALCDHPDLLQREEIKTLFS 108
Query: 177 -----RERESLNESIVHAINNASEAWGITCLRYEI 206
R ++ L A S + GI LR I
Sbjct: 109 ADSISRAKQILAMIPGRATGAYSHSQGIHGLRDAI 143
>1gp6_A Leucoanthocyanidin dioxygenase; 2-oxoglutarate dependent
dioxygenase, flavonoid biosynthesis; HET: MES QUE DH2;
1.75A {Arabidopsis thaliana} SCOP: b.82.2.1 PDB: 1gp5_A*
1gp4_A* 2brt_A*
Length = 356
Score = 27.2 bits (61), Expect = 7.2
Identities = 8/30 (26%), Positives = 15/30 (50%)
Query: 170 ISLDKVFRERESLNESIVHAINNASEAWGI 199
I L + + E + E+ + + AS WG+
Sbjct: 50 IDLKNIESDDEKIRENCIEELKKASLDWGV 79
>3sfw_A Dihydropyrimidinase; hydrolase, zinc binding; HET: KCX; 1.73A
{Brevibacillus agri} PDB: 1yny_A 1k1d_A*
Length = 461
Score = 27.1 bits (61), Expect = 7.7
Identities = 5/26 (19%), Positives = 11/26 (42%)
Query: 264 KLLIKRAAILESEGIRAADINVAEGK 289
K I+ ++ + AD+ + K
Sbjct: 2 KKWIRNGTVVTASDTYQADVLIDGEK 27
>4ubp_C Protein (urease (chain C)); bacillus pasteurii, nickel,
acetohydroxamic acid, metalloenzyme, hydrolase; HET:
KCX; 1.55A {Sporosarcina pasteurii} SCOP: b.92.1.1
c.1.9.2 PDB: 1s3t_C* 2ubp_C* 3ubp_C* 1ubp_C* 1ie7_C*
Length = 570
Score = 27.3 bits (60), Expect = 8.1
Identities = 14/42 (33%), Positives = 20/42 (47%)
Query: 248 EGKRQAKILEAAKYLCKLLIKRAAILESEGIRAADINVAEGK 289
EG + + + LL+ A IL+ GI ADI V +G
Sbjct: 52 EGMGENGTYTRTENVLDLLLTNALILDYTGIYKADIGVKDGY 93
>3nqb_A Adenine deaminase 2; PSI-II, structural genomics, protein structure
initiative, N SGX research center for structural
genomics, nysgxrc; 2.21A {Agrobacterium tumefaciens}
PDB: 3t81_A 3t8l_A
Length = 608
Score = 26.9 bits (59), Expect = 8.5
Identities = 14/73 (19%), Positives = 26/73 (35%), Gaps = 12/73 (16%)
Query: 219 MQMQVEAERKKRAAILESEGIRAADINVAEGKRQAKILEAAKYLCKLLIKRAAIL--ESE 276
M + R A L + +RA + A G ++ +LI ++ +
Sbjct: 1 MSLMTAQIRLAEPADLNDDTLRARAVAAARGDQRF----------DVLITGGTLVDVVTG 50
Query: 277 GIRAADINVAEGK 289
+R ADI +
Sbjct: 51 ELRPADIGIVGAL 63
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
0.315 0.130 0.346
Gapped
Lambda K H
0.267 0.0538 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,356,019
Number of extensions: 267457
Number of successful extensions: 640
Number of sequences better than 10.0: 1
Number of HSP's gapped: 629
Number of HSP's successfully gapped: 37
Length of query: 296
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 203
Effective length of database: 4,105,140
Effective search space: 833343420
Effective search space used: 833343420
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: 57 (26.2 bits)