RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8357
(276 letters)
>3dad_A FH1/FH2 domain-containing protein 1; formin, FHOD1, GTPase-binding
domain, ubiquitin-superfold, armadillo repeats,
actin-binding, coiled coil; 2.30A {Homo sapiens}
Length = 339
Score = 146 bits (368), Expect = 7e-42
Identities = 77/163 (47%), Positives = 116/163 (71%), Gaps = 7/163 (4%)
Query: 114 LEEQGIAAVIRSLDQHGIKYTTSSTDLPTEPLVALGQVMLYVDGMTGIMDHPPTVQWLYV 173
+ +G++ +IR + + + L ALGQ+ML+VDGM G++ H T+QWLY
Sbjct: 157 VHSEGLSCLIRVG-------AAADHNYQSYILRALGQLMLFVDGMLGVVAHSDTIQWLYT 209
Query: 174 LVASKFRLVIKTALKLLLIFVEYVESNCFLLIQAVHAVDNSNGEPPWSNIMRLLTDRDST 233
L AS RLV+KTALKLLL+FVEY E+N L I+AV++V ++ G PPW+N++ +L +++
Sbjct: 210 LCASLSRLVVKTALKLLLVFVEYSENNAPLFIRAVNSVASTTGAPPWANLVSILEEKNGA 269
Query: 234 DTELLIYAMSLLNKTLNGIPDQDSYYDQVDALEEQGIAAVIRR 276
D ELL+Y ++L+NKTL +PDQDS+YD DALE+QG+ A+++R
Sbjct: 270 DPELLVYTVTLINKTLAALPDQDSFYDVTDALEQQGMEALVQR 312
Score = 139 bits (351), Expect = 2e-39
Identities = 68/126 (53%), Positives = 98/126 (77%)
Query: 1 MLYVDGMTGIMDHPPTVQWLYVLVASKFRLVIKTALKLLLIFVEYVESNCFLLIQAVHAV 60
ML+VDGM G++ H T+QWLY L AS RLV+KTALKLLL+FVEY E+N L I+AV++V
Sbjct: 188 MLFVDGMLGVVAHSDTIQWLYTLCASLSRLVVKTALKLLLVFVEYSENNAPLFIRAVNSV 247
Query: 61 DNSNGEPPWSNIMRLLTDRDSTDTELLIYAMSLLNKTLNGIPDQDSYYDQVDALEEQGIA 120
++ G PPW+N++ +L +++ D ELL+Y ++L+NKTL +PDQDS+YD DALE+QG+
Sbjct: 248 ASTTGAPPWANLVSILEEKNGADPELLVYTVTLINKTLAALPDQDSFYDVTDALEQQGME 307
Query: 121 AVIRSL 126
A+++
Sbjct: 308 ALVQRH 313
>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 = 48.3 bits (114), Expect = 2e-06
Identities = 42/251 (16%), Positives = 80/251 (31%), Gaps = 76/251 (30%)
Query: 32 IKTALKLLLIFVEYVESNCFLLIQAVHAVDNSNGEPPWS-NIMR--------LLTDRDST 82
I+ L+ LL Y LL+ + N + LLT R
Sbjct: 230 IQAELRRLLKSKPYENC---LLV-----LLNV-----QNAKAWNAFNLSCKILLTTRFKQ 276
Query: 83 DTELLIYAMSLLNKTLNGIPDQDSYYDQVDAL-EEQGIAAVIRSLDQHGIKYTTSSTDLP 141
T+ L A + + +L+ L ++ + +++ LD DLP
Sbjct: 277 VTDFLS-AATTTHISLD---------HHSMTLTPDEVKSLLLKYLD-------CRPQDLP 319
Query: 142 TE-----PLVALGQVMLYVDGMTG--IMDHPPTVQ-WLYVLVASKFRLVIKTALKLLLIF 193
E P + I D T W +V K +I+++L +L
Sbjct: 320 REVLTTNPRRL---------SIIAESIRDGLATWDNWKHVNC-DKLTTIIESSLNVL--- 366
Query: 194 VEYVESNCFLLIQAVHAV--DNSNGEPPWSNIMRLLTDRDSTDTELLIYAM---SLLNKT 248
F + +V +++ P + + D +D +++ + SL+ K
Sbjct: 367 EPAEYRKMFDRL----SVFPPSAH--IPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQ 420
Query: 249 LNGIPDQDSYY 259
P + +
Sbjct: 421 ----PKESTIS 427
Score = 36.8 bits (84), Expect = 0.008
Identities = 42/271 (15%), Positives = 89/271 (32%), Gaps = 92/271 (33%)
Query: 10 IMDHPPTVQ-WLYVLVASKFRLVIKTALKLLLIFVEYVESNCFLLIQAVHAV--DNSNGE 66
I D T W +V K +I+++L +L F + +V +++
Sbjct: 337 IRDGLATWDNWKHVNC-DKLTTIIESSLNVL---EPAEYRKMFDRL----SVFPPSAH-I 387
Query: 67 PP------WSN--------IM-----RLLTDRDSTDTELLIYAMSL-----------LNK 96
P W + ++ L ++ ++ + I ++ L L++
Sbjct: 388 PTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHR 447
Query: 97 TL-------------NGIPDQ-DSYYDQ-----VDALEEQGIAAVIRS--LD----QHGI 131
++ + IP D Y+ + +E + R LD + I
Sbjct: 448 SIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKI 507
Query: 132 KYTTSSTDLPTEPLVALGQVMLYVDGMTGIMDHPPTVQWLYVLVASKFRLVIKTALKLLL 191
++ +++ + L L Q+ Y I D+ P + RLV +L
Sbjct: 508 RHDSTAWNASGSILNTLQQLKFYKP---YICDNDPKYE----------RLV-----NAIL 549
Query: 192 IFVEYVESNCFL-----LIQAVHAVDNSNGE 217
F+ +E N L++ A+ +
Sbjct: 550 DFLPKIEENLICSKYTDLLRI--ALMAEDEA 578
Score = 32.9 bits (74), Expect = 0.12
Identities = 51/346 (14%), Positives = 86/346 (24%), Gaps = 141/346 (40%)
Query: 10 IMDHPPTVQWLYVLVASKFRLVIKTALKLLLIFVEYV-ESNCFLLIQAVHAVDNSNGEPP 68
I+ V L F ++ +++ FVE V N L+ + +P
Sbjct: 54 IIMSKDAVSGTLRL----FWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQR---QP- 105
Query: 69 WSNIMRLLTDRDSTDTELLIYAMSLLNKTLNGIPDQDSYYDQVDALEEQGIAAVIRSLDQ 128
S T + I ++ N Y V L+ + ++L +
Sbjct: 106 ------------SMMTRMYIEQ---RDRLYNDNQVFAKY--NVSRLQP--YLKLRQALLE 146
Query: 129 HGIKYTTSSTDLPTEPLVALGQVMLYVDGMTGI----------MDHPPT------VQW-- 170
L V +DG+ G + + + W
Sbjct: 147 -----------LRPAKNVL-------IDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLN 188
Query: 171 ----------------LYVLVASKF----------RLVI---KTALKLLLIFVEYVESNC 201
L + + +L I + L+ LL Y
Sbjct: 189 LKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENC-- 246
Query: 202 FLLIQAVHAVDNSNGEPPWS-NIMR--------LLTDRDSTDTELLI------------- 239
LL+ + N + LLT R T+ L
Sbjct: 247 -LLV-----LLNV-----QNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHS 295
Query: 240 ------YAMSLLNKTLN----GIPDQDSYYDQVDALEEQGIAAVIR 275
SLL K L+ +P + + IA IR
Sbjct: 296 MTLTPDEVKSLLLKYLDCRPQDLPREVL---TTNPRRLSIIAESIR 338
>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 = 43.5 bits (102), Expect = 5e-05
Identities = 52/296 (17%), Positives = 94/296 (31%), Gaps = 86/296 (29%)
Query: 23 LVASKFRLVIKTALKLLLIFVEYVESNCFL-----------LIQAVHAVDNS-------- 63
L A + T +K + Y+ + L +AV +
Sbjct: 104 LAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQ 163
Query: 64 -NGEPPWSNIMRLLTDRDSTDTELLI-YAMSLLNKTLNGIPDQDSYY----DQVDALEEQ 117
N + + +R L LI ++ L++ + D + + + ++ LE
Sbjct: 164 GNTDDYFEE-LRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENP 222
Query: 118 GIAAVIRSLDQHGIKYTTSSTDLP-TEPLVALGQ-----VMLYVDGMT---------GIM 162
+ Y S P + PL+ + Q V + G T G
Sbjct: 223 S--------NTPDKDYLLSI---PISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGAT 271
Query: 163 DHPPTVQWLY--VLVAS-----KFRLVIKTALKLLL-IFVEYVE--SNCFLLIQAVH-AV 211
H Q L V +A F + ++ A+ +L I V E N L + ++
Sbjct: 272 GH---SQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSL 328
Query: 212 DNSNGEP-PWSNIMRLLTDRDSTDTELLIYAMSLLNKTL-----------NGIPDQ 255
+N+ G P P M L+ + T ++ Y ++ N L NG
Sbjct: 329 ENNEGVPSP----M--LSISNLTQEQVQDY-VNKTNSHLPAGKQVEISLVNG-AKN 376
>1oyw_A RECQ helicase, ATP-dependent DNA helicase; winged helix,
helix-turn-helix, ATP binding, Zn(2+) binding,
hydrolase; 1.80A {Escherichia coli} SCOP: a.4.5.43
c.37.1.19 c.37.1.19 PDB: 1oyy_A*
Length = 523
Score = 30.2 bits (69), Expect = 0.68
Identities = 8/13 (61%), Positives = 10/13 (76%)
Query: 109 DQVDALEEQGIAA 121
DQVD L+ G+AA
Sbjct: 80 DQVDQLQANGVAA 92
Score = 30.2 bits (69), Expect = 0.68
Identities = 8/13 (61%), Positives = 10/13 (76%)
Query: 260 DQVDALEEQGIAA 272
DQVD L+ G+AA
Sbjct: 80 DQVDQLQANGVAA 92
>1j58_A YVRK protein; cupin, decarboxyklase, oxalate, manganese, formate,
metal BI protein; 1.75A {Bacillus subtilis} SCOP:
b.82.1.2 PDB: 1l3j_A 1uw8_A 2uyb_A 2uy9_A 2uy8_A 2v09_A
2uya_A 3s0m_A
Length = 385
Score = 28.7 bits (63), Expect = 2.4
Identities = 19/135 (14%), Positives = 34/135 (25%), Gaps = 2/135 (1%)
Query: 42 FVEYVESNCFLLIQAVHAVDNSNGEPP--WSNIMRLLTDRDSTDTELLIYAMSLLNKTLN 99
F+ + F D P + + + S Y
Sbjct: 151 FLLVFDDGSFSENSTFQLTDWLAHTPKEVIAANFGVTKEEISNLPGKEKYIFENQLPGSL 210
Query: 100 GIPDQDSYYDQVDALEEQGIAAVIRSLDQHGIKYTTSSTDLPTEPLVALGQVMLYVDGMT 159
+ +V + + G Y ST+ +A V + M
Sbjct: 211 KDDIVEGPNGEVPYPFTYRLLEQEPIESEGGKVYIADSTNFKVSKTIASALVTVEPGAMR 270
Query: 160 GIMDHPPTVQWLYVL 174
+ HP T +W Y +
Sbjct: 271 ELHWHPNTHEWQYYI 285
>1eys_H Photosynthetic reaction center; membrane protein complex, electron
transport; HET: BGL BCL BPH MQ8 HEM CRT LDA PEF; 2.20A
{Thermochromatium tepidum} SCOP: b.41.1.1 f.23.10.1
Length = 259
Score = 28.3 bits (63), Expect = 2.8
Identities = 12/59 (20%), Positives = 20/59 (33%), Gaps = 8/59 (13%)
Query: 88 IYAMSLLNKTLNGIPDQDSYYDQVDALEEQGIAAVIRSLDQHGIKYTTSSTDLPTEPLV 146
+ ++ +P + DQV EE + A G Y T+ PL+
Sbjct: 209 VKVDAIKAAHFANVPTLSNP-DQVTLYEEDKVCAYYAG----GKLYATAE---RAGPLL 259
>2vqa_A SLL1358 protein, MNCA; periplasmic binding protein, metal-binding
protein, cupin, BI-cupin, oxalate decarboxylase; 2.95A
{Synechocystis SP}
Length = 361
Score = 28.2 bits (62), Expect = 3.4
Identities = 10/39 (25%), Positives = 16/39 (41%)
Query: 136 SSTDLPTEPLVALGQVMLYVDGMTGIMDHPPTVQWLYVL 174
S+ + P + + L M + HP +W YVL
Sbjct: 224 SAKEFPGSFNMTGALIHLEPGAMRQLHWHPNADEWQYVL 262
>2v1x_A ATP-dependent DNA helicase Q1; DNA strand annealing, mismatch
repair, nucleotide-binding, DNA-binding, polymorphism,
nuclear protein, ATPase; HET: ADP; 2.00A {Homo sapiens}
PDB: 2wwy_A*
Length = 591
Score = 28.0 bits (63), Expect = 3.7
Identities = 6/14 (42%), Positives = 10/14 (71%)
Query: 109 DQVDALEEQGIAAV 122
DQ+ L++ GI+A
Sbjct: 99 DQLMVLKQLGISAT 112
Score = 28.0 bits (63), Expect = 3.7
Identities = 6/14 (42%), Positives = 10/14 (71%)
Query: 260 DQVDALEEQGIAAV 273
DQ+ L++ GI+A
Sbjct: 99 DQLMVLKQLGISAT 112
>1eex_B Propanediol dehydratase; coenzyme B12, potassium ION, TIM barrel,
lyase; HET: COY; 1.70A {Klebsiella oxytoca} SCOP:
c.51.3.1 PDB: 1dio_B* 1egm_B* 1egv_B* 1iwb_B* 1uc4_B*
1uc5_B* 3auj_B*
Length = 224
Score = 27.4 bits (60), Expect = 4.2
Identities = 11/35 (31%), Positives = 17/35 (48%), Gaps = 1/35 (2%)
Query: 94 LNKTLNGIPDQDSYYDQVDALEEQGI-AAVIRSLD 127
+ GIP + + + +EE+GI A VIR
Sbjct: 75 QTVNIVGIPHKSILREVIAGIEEEGIKARVIRCFK 109
>1iwp_B Glycerol dehydratase beta subunit; cobalamin, radical catalysis,
lyase; HET: B12; 2.10A {Klebsiella pneumoniae} SCOP:
c.51.3.1 PDB: 1mmf_B*
Length = 194
Score = 27.3 bits (60), Expect = 5.1
Identities = 10/35 (28%), Positives = 18/35 (51%), Gaps = 1/35 (2%)
Query: 94 LNKTLNGIPDQDSYYDQVDALEEQGI-AAVIRSLD 127
+ TL +P + + +EE+G+ A V+R L
Sbjct: 42 QHHTLIDMPHGAILKELIAGVEEEGLHARVVRILR 76
Score = 27.3 bits (60), Expect = 5.1
Identities = 8/32 (25%), Positives = 16/32 (50%)
Query: 245 LNKTLNGIPDQDSYYDQVDALEEQGIAAVIRR 276
+ TL +P + + +EE+G+ A + R
Sbjct: 42 QHHTLIDMPHGAILKELIAGVEEEGLHARVVR 73
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
0.321 0.137 0.400
Gapped
Lambda K H
0.267 0.0486 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,218,099
Number of extensions: 245038
Number of successful extensions: 506
Number of sequences better than 10.0: 1
Number of HSP's gapped: 504
Number of HSP's successfully gapped: 18
Length of query: 276
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 184
Effective length of database: 4,133,061
Effective search space: 760483224
Effective search space used: 760483224
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 (21.8 bits)
S2: 57 (26.3 bits)