RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 021846
(306 letters)
>3h90_A Ferrous-iron efflux pump FIEF; membrane protein, zinc transporter,
cell inner membrane, cell membrane, ION transport, iron
transport; 2.90A {Escherichia coli k-12} PDB: 2qfi_A
Length = 283
Score = 95.3 bits (238), Expect = 4e-23
Identities = 37/184 (20%), Positives = 79/184 (42%), Gaps = 11/184 (5%)
Query: 103 TLAIRISNVANMVLFAAKVYASVKSGSLAIIASTLDSLLDLLSGFI-LWFTAFSMQTPNP 161
+ A + +L K++A +GS++I+A+ +DSL+D+ + L +S+Q +
Sbjct: 3 SRAAIAATAMASLLLLIKIFAWWYTGSVSILAALVDSLVDIGASLTNLLVVRYSLQPADD 62
Query: 162 YQYPIGKKRMQPLGILVFASVMATLGLQIILESLRTLVSNEDQFNLTKEQEQWVVGIMLS 221
+ G + + L L + ++ L + L ++ L+S V + +
Sbjct: 63 -NHSFGHGKAESLAALAQSMFISGSALFLFLTGIQHLISPT-----PMTDPGVGVIVTIV 116
Query: 222 VTLVKLLLVVYCRAFTNEI----VKAYAQDHFFDVITNIIGLVAVLLANYIDDWMDPVGA 277
+ ++LV + R V+A + DV+ N L+A+ L+ Y D + A
Sbjct: 117 ALICTIILVSFQRWVVRRTQSQAVRADMLHYQSDVMMNGAILLALGLSWYGWHRADALFA 176
Query: 278 IIVS 281
+ +
Sbjct: 177 LGIG 180
>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 = 43.3 bits (101), Expect = 7e-05
Identities = 39/292 (13%), Positives = 83/292 (28%), Gaps = 70/292 (23%)
Query: 2 VEPVARE--SDEETSLLAQQGN-VDRSWRLNFDGFQVSPERTEKKPPRGLHDCLGV---- 54
V+ + + S EE + + V + RL F E + + + + L +
Sbjct: 38 VQDMPKSILSKEEIDHIIMSKDAVSGTLRL-FWTLLSKQEEMVQ---KFVEEVLRINYKF 93
Query: 55 ---------LGPEDNVAEYYQQQVQMLEGFNEMDALAERGFVPGMTKEERENLARSETLA 105
P Y +Q+ ++ +N+ A+ V + L
Sbjct: 94 LMSPIKTEQRQPSMMTRMYIEQRDRL---YNDNQVFAKY-NVS--RLQPYLKL---RQAL 144
Query: 106 IRISNVANMVLFAAKVYASVKSGSLAIIASTLDSLLDLLSGFILWFTAFSMQTPNPYQYP 165
+ + N+++ S K+ +A+ + + I W
Sbjct: 145 LELRPAKNVLIDGVL--GSGKT-WVALDVCLSYKVQCKMDFKIFWLN------------- 188
Query: 166 IGKKRMQPLGILVFASVMATLGLQIILESLRTLVSNEDQFNLTKEQ-EQWVVGIMLSVTL 224
+ P +L ++ L QI + + + L + + ++ S
Sbjct: 189 LKNCN-SPETVL---EMLQKLLYQID-PNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPY 243
Query: 225 VKLLLV---VYCRAFTNEIVKAYAQDHFFD------VITNIIGLVAVLLANY 267
LLV V + A F+ + T + L A
Sbjct: 244 ENCLLVLLNVQ----NAKAWNA------FNLSCKILLTTRFKQVTDFLSAAT 285
Score = 42.5 bits (99), Expect = 1e-04
Identities = 53/326 (16%), Positives = 110/326 (33%), Gaps = 88/326 (26%)
Query: 2 VEPVARESDEET-------SLLAQQGN-----VDRSWRLNFDGFQVSPERTEKKPPRGLH 49
++ + D + +LL++Q V+ R+N+ F +SP +TE++
Sbjct: 51 IDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYK-FLMSPIKTEQR------ 103
Query: 50 DCLGVLGPEDNVAEYYQQQVQMLEGFNEMDALAERGFVPGMTKEERENLARSETLAIR-I 108
P Y +Q+ ++ +N+ A+ V + + R L +R
Sbjct: 104 ------QPSMMTRMYIEQRDRL---YNDNQVFAKY-NVS---RLQPYLKLRQALLELRPA 150
Query: 109 SNVA--NM------VLFAAKVYAS-------------VKSGSLAIIASTLDSLLDLLSGF 147
NV + + A V S + + + L+ L LL
Sbjct: 151 KNVLIDGVLGSGKTWV-ALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQI 209
Query: 148 ILWFTAFSMQTPN-PYQYPIGKKRMQPLGILVFASVMATLGLQIILESLRTLVSNE---D 203
+T+ S + N + + ++ L S L ++L + V N +
Sbjct: 210 DPNWTSRSDHSSNIKLRIHSIQAELRRL----LKSKPYENCL-LVLLN----VQNAKAWN 260
Query: 204 QFNL-------TKEQEQWVVGIMLSVTLVKLLLVVYCRAFTN----EIVKAYAQDHFFD- 251
FNL T+ ++ V + + T + L + T ++ Y D
Sbjct: 261 AFNLSCKILLTTRFKQ--VTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDL 318
Query: 252 ----VITN--IIGLVAVLLANYIDDW 271
+ TN + ++A + + + W
Sbjct: 319 PREVLTTNPRRLSIIAESIRDGLATW 344
>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 = 31.8 bits (71), Expect = 0.11
Identities = 9/42 (21%), Positives = 18/42 (42%), Gaps = 14/42 (33%)
Query: 94 ERENLARSETLAIRISNVANMVLFAAKVYASVKSGSLAIIAS 135
E++ L + + + K+YA + +LAI A+
Sbjct: 18 EKQALKKLQA--------------SLKLYADDSAPALAIKAT 45
>3dnu_A Protein HIPA; persistence, MDT, multidrug resistance, unknown
function; 1.54A {Escherichia coli} PDB: 3dnt_A 3dnv_A*
3dnw_A* 3hzi_A* 2wiu_A 3fbr_A*
Length = 440
Score = 31.5 bits (71), Expect = 0.29
Identities = 8/66 (12%), Positives = 18/66 (27%), Gaps = 3/66 (4%)
Query: 23 DRSWRLNFDGFQVSPE---RTEKKPPRGLHDCLGVLGPEDNVAEYYQQQVQMLEGFNEMD 79
W + +S + + + L P+ + + + D
Sbjct: 29 APEWLASRYARPLSLSLPLQRGNITSDAVFNFFDNLLPDSPIVRDRIVKRYHAKSRQPFD 88
Query: 80 ALAERG 85
L+E G
Sbjct: 89 LLSEIG 94
>3d3z_A Actibind; RNAse, hydrolase; HET: NAG D3Z; 1.70A {Aspergillus niger}
Length = 247
Score = 30.6 bits (68), Expect = 0.58
Identities = 9/44 (20%), Positives = 19/44 (43%)
Query: 49 HDCLGVLGPEDNVAEYYQQQVQMLEGFNEMDALAERGFVPGMTK 92
C ++ V +++QQ V + + + AL++ G P
Sbjct: 124 PSCYTDYYAQEEVGDFFQQVVDLFKTLDSYTALSDAGITPSEDA 167
>1mxr_A Ribonucleotide reductase R2; radical protein, DI iron,
oxidoreductase; 1.42A {Escherichia coli} SCOP: a.25.1.2
PDB: 1jpr_A 1jqc_A 1xik_A 3uus_E* 1yfd_A 1piy_A 1r65_A
2xof_A* 1biq_B* 1rsv_A 1piz_A 1piu_A 1pim_A 1rsr_A
1biq_A* 1rib_A 1mrr_A 1rnr_A* 1pj0_A 1pj1_A ...
Length = 375
Score = 28.9 bits (65), Expect = 2.1
Identities = 15/81 (18%), Positives = 31/81 (38%), Gaps = 17/81 (20%)
Query: 189 QIILESLRTLVSNEDQFNLTKEQEQWVVGIMLSVTLVKLLLVVYCRAFTNEIVKAYAQDH 248
Q +L LR+ + + + +E +Q + + + K +A
Sbjct: 246 QHMLNLLRSGADDPEMAEIAEECKQECYDLFVQAA---------------QQEKDWADYL 290
Query: 249 FFDVITNIIGLVAVLLANYID 269
F D ++IGL +L Y++
Sbjct: 291 FRDG--SMIGLNKDILCQYVE 309
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.6 bits (63), Expect = 2.3
Identities = 13/88 (14%), Positives = 31/88 (35%), Gaps = 24/88 (27%)
Query: 16 LAQQGNVDRSWRLNFDGFQVSPERTEKKPPRGLHDCLG-------VLGPEDNVAEYYQQQ 68
L Q+ R WR +R ++ D + ++ E+ Q+Q
Sbjct: 80 LTQEPESIRKWREEQR------KRLQEL------DAASKVMEQEWREKAKKDLEEWNQRQ 127
Query: 69 VQMLEGFNEMDALAERGFVPGMTKEERE 96
+ +E + +A++ F ++ +
Sbjct: 128 SEQVEKNKINNRIADKAFY-----QQPD 150
>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 = 2.7
Identities = 37/254 (14%), Positives = 76/254 (29%), Gaps = 110/254 (43%)
Query: 88 PGMTKEEREN--LAR----------SETLAIRISN-VAN-----MVLFAAK--------- 120
GM + + A+ +T I + V N + F +
Sbjct: 1629 QGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENY 1688
Query: 121 ---VYASVKSGSLAIIASTLDSLLDLLSGFI-------LWFTAFSMQTPNPYQYP----I 166
++ ++ G L + + + + L T F T Q P +
Sbjct: 1689 SAMIFETIVDGKLK-TEKIFKEINEHSTSYTFRSEKGLLSATQF---T----Q-PALTLM 1739
Query: 167 GK---KRMQPLGILVFASVMA--TLGLQIILE-SLRTLVSNEDQFNLTKEQEQWVVGIML 220
K + ++ G++ + A +LG E + L S + +M
Sbjct: 1740 EKAAFEDLKSKGLIPADATFAGHSLG-----EYA--ALAS--------------LADVM- 1777
Query: 221 SV-TLVKLLLVVYCRAFT----------------------NEIVKAYAQDHFFDVITNII 257
S+ +LV++ V+ R T + +++Q+ V+ +
Sbjct: 1778 SIESLVEV---VFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVG 1834
Query: 258 ----GLVAVLLANY 267
LV + NY
Sbjct: 1835 KRTGWLVEI--VNY 1846
>3t0o_A Ribonuclease T2, ribonuclease 6; rnaset2, alpha/beta fold, RNA
cleavage, hydrol; HET: NAG; 1.59A {Homo sapiens}
Length = 238
Score = 27.9 bits (61), Expect = 3.9
Identities = 5/42 (11%), Positives = 17/42 (40%)
Query: 51 CLGVLGPEDNVAEYYQQQVQMLEGFNEMDALAERGFVPGMTK 92
C + ++ +Y+ + +++ + L + G P +
Sbjct: 97 CAAQVDALNSQKKYFGRSLELYRELDLNSVLLKLGIKPSINY 138
>1ioo_A SF11-RNAse; SELF-incompatibility ribonuclease, hydrolase; HET: NAG
BMA MAN; 1.55A {Nicotiana alata} SCOP: d.124.1.1
Length = 196
Score = 27.4 bits (60), Expect = 4.6
Identities = 6/36 (16%), Positives = 15/36 (41%)
Query: 56 GPEDNVAEYYQQQVQMLEGFNEMDALAERGFVPGMT 91
N Y+ +++ + F+ + L +PG +
Sbjct: 96 QKRYNQNTYFGLALRLKDKFDLLRTLQTHRIIPGSS 131
>3m73_A Tellurite resistance protein TEHA homolog; anion channel, alpha
helical integral membrane protein, STRU genomics, PSI-2;
HET: BOG; 1.15A {Haemophilus influenzae} PDB: 3m75_A*
3m74_A* 3m77_A* 3m71_A* 3m7b_A* 3m7c_A* 3m7e_A* 3m7l_A*
3m78_A* 3m76_A* 3m72_A*
Length = 314
Score = 27.2 bits (60), Expect = 7.2
Identities = 20/138 (14%), Positives = 40/138 (28%), Gaps = 7/138 (5%)
Query: 168 KKRMQPLGILVFASVMATLGLQIILESLRTLVSNEDQFNLTKEQEQWVVGIMLSVTLVKL 227
+ PL F + L + L L + +V + + + +
Sbjct: 3 ITKPFPLPTGYFGIPLGLAALSLAWFHLENLFPAARMVSDV----LGIVASAVWILFILM 58
Query: 228 LLVVYCRAFTNEIVKAYAQDHFFDVITNIIGLVAVLLANYIDDWMDPVGAII-VSQISNS 286
F E V+A +I + +L+ + + W + ++
Sbjct: 59 YAYKLRYYF--EEVRAEYHSPVRFSFIALIPITTMLVGDILYRWNPLIAEVLIWIGTIGQ 116
Query: 287 LVFSCACVHLLVFMWGIE 304
L+FS V L E
Sbjct: 117 LLFSTLRVSELWQGGVFE 134
>3pk1_A Induced myeloid leukemia cell differentiation Pro 1; BCL-2 family
fold, regulation of apoptosis, mitochondri
apoptosis-apoptosis regulator complex; 2.49A {Homo
sapiens}
Length = 189
Score = 26.9 bits (58), Expect = 7.7
Identities = 11/97 (11%), Positives = 29/97 (29%), Gaps = 4/97 (4%)
Query: 180 ASVMATLGLQIILESLRTLVSNEDQFNLTKEQEQW----VVGIMLSVTLVKLLLVVYCRA 235
+ +G + + ++ E + V+ + S + +V +
Sbjct: 73 LETLRRVGDGVQRNHETAFQGMLRKLDIKNEDDVKSLSRVMIHVFSDGVTNWGRIVTLIS 132
Query: 236 FTNEIVKAYAQDHFFDVITNIIGLVAVLLANYIDDWM 272
F + K + I + + +L DW+
Sbjct: 133 FGAFVAKHLKTINQESCIEPLAESITDVLVRTKRDWL 169
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 0.136 0.399
Gapped
Lambda K H
0.267 0.0476 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,568,032
Number of extensions: 268567
Number of successful extensions: 483
Number of sequences better than 10.0: 1
Number of HSP's gapped: 476
Number of HSP's successfully gapped: 15
Length of query: 306
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 213
Effective length of database: 4,105,140
Effective search space: 874394820
Effective search space used: 874394820
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 (21.9 bits)
S2: 57 (26.3 bits)