RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14094
(149 letters)
>1w63_Q Adapter-related protein complex 1 sigma 1A subunit; endocytosis,
clathrin adaptor, transport, coated PITS; 4.0A {Mus
musculus} SCOP: i.23.1.1
Length = 158
Score = 157 bits (399), Expect = 1e-50
Identities = 114/142 (80%), Positives = 130/142 (91%)
Query: 8 MQFMLLFSRQGKLRLQKWYVAHPDKLKKKITRELITTILARKPKMCSFLEWKDVKIVYKR 67
M+FMLLFSRQGKLRLQKWY+A DK +KK+ REL+ +LARKPKMCSFLEW+D+K+VYKR
Sbjct: 2 MRFMLLFSRQGKLRLQKWYLATSDKERKKMVRELMQVVLARKPKMCSFLEWRDLKVVYKR 61
Query: 68 YASLYFCCAIEQNDNELLTLEIIHRYVELLDKYFGSVCELDIIFNFEKAYFILDELLLGG 127
YASLYFCCAIE DNEL+TLE+IHRYVELLDKYFGSVCELDIIFNFEKAYFILDE L+GG
Sbjct: 62 YASLYFCCAIEGQDNELITLELIHRYVELLDKYFGSVCELDIIFNFEKAYFILDEFLMGG 121
Query: 128 EIQETSKKNVLKAIAAQDLLQE 149
++Q+TSKK+VLKAI DLLQE
Sbjct: 122 DVQDTSKKSVLKAIEQADLLQE 143
>2vgl_S AP-2 complex subunit sigma-1; cytoplasmic vesicle, alternative
splicing, endocytosis, lipid-binding, golgi apparatus,
adaptor, membrane, transport; HET: IHP; 2.59A {Mus
musculus} SCOP: i.23.1.1 PDB: 2jkt_I 2jkr_I* 2xa7_S
Length = 142
Score = 153 bits (388), Expect = 4e-49
Identities = 64/141 (45%), Positives = 97/141 (68%)
Query: 8 MQFMLLFSRQGKLRLQKWYVAHPDKLKKKITRELITTILARKPKMCSFLEWKDVKIVYKR 67
++F+L+ +R GK RL KWY+ D K+K+ E+ + R K +F+E+++ KI+Y+R
Sbjct: 2 IRFILIQNRAGKTRLAKWYMQFDDDEKQKLIEEVHAVVTVRDAKHTNFVEFRNFKIIYRR 61
Query: 68 YASLYFCCAIEQNDNELLTLEIIHRYVELLDKYFGSVCELDIIFNFEKAYFILDELLLGG 127
YA LYFC ++ NDN L LE IH +VE+L++YF +VCELD++FNF K Y ++DE+ L G
Sbjct: 62 YAGLYFCICVDVNDNNLAYLEAIHNFVEVLNEYFHNVCELDLVFNFYKVYTVVDEMFLAG 121
Query: 128 EIQETSKKNVLKAIAAQDLLQ 148
EI+ETS+ VLK + L+
Sbjct: 122 EIRETSQTKVLKQLLMLQSLE 142
>3tjz_C Coatomer subunit zeta-1; protein trafficking, golgi membrane,
protein transport-prote binding complex; HET: GNP; 2.90A
{Bos taurus} PDB: 2hf6_A
Length = 153
Score = 136 bits (343), Expect = 4e-42
Identities = 31/140 (22%), Positives = 64/140 (45%), Gaps = 4/140 (2%)
Query: 8 MQFMLLFSRQGKLRLQKWYV-AHPDKLKKKITRELITTILARKPKMCSFLEWKDVKIVYK 66
++ +L+ G K+Y +P ++K + I R + LE + +VYK
Sbjct: 13 VKAILILDNDGDRLFAKYYDDTYPSVKEQKAFEKNIFNKTHRTDSEIALLE--GLTVVYK 70
Query: 67 RYASLYFCCAIEQNDNELLTLEIIHRYVELLDKYF-GSVCELDIIFNFEKAYFILDELLL 125
LYF +NEL+ + +++ + L + +V + ++ N E + +DE++
Sbjct: 71 SSIDLYFYVIGSSYENELMLMTVLNCLFDSLSQMLRKNVEKRALLENMEGLFLAVDEIVD 130
Query: 126 GGEIQETSKKNVLKAIAAQD 145
GG I E+ + V+ +A +
Sbjct: 131 GGVILESDPQQVVHRVALRG 150
>2vgl_M AP-2 complex subunit MU-1; cytoplasmic vesicle, alternative
splicing, endocytosis, lipid-binding, golgi apparatus,
adaptor, membrane, transport; HET: IHP; 2.59A {Rattus
norvegicus} PDB: 2jkr_M 2jkt_M 2bp5_M* 2xa7_M
Length = 435
Score = 90.1 bits (222), Expect = 3e-22
Identities = 24/129 (18%), Positives = 57/129 (44%), Gaps = 2/129 (1%)
Query: 9 QFMLLFSRQGKLRLQKWYVAHPDKLKKKITRELITTILARKPKMCSFLEWKDVKIVYKRY 68
+ +++ +G++ + + Y D + + + I AR+ + +
Sbjct: 3 GGLFIYNHKGEVLISRVY--RDDIGRNAVDAFRVNVIHARQQVRSPVTNIARTSFFHVKR 60
Query: 69 ASLYFCCAIEQNDNELLTLEIIHRYVELLDKYFGSVCELDIIFNFEKAYFILDELLLGGE 128
++++ +QN N + E +++ +++ YFG + E +I NF Y +LDE+L G
Sbjct: 61 SNIWLAAVTKQNVNAAMVFEFLYKMCDVMAAYFGKISEENIKNNFVLIYELLDEILDFGY 120
Query: 129 IQETSKKNV 137
Q + +
Sbjct: 121 PQNSETGAL 129
>1w63_M Adaptor-related protein complex 1, MU 1 subunit; endocytosis,
clathrin adaptor, transport, coated PITS; 4.0A {Mus
musculus} SCOP: i.23.1.1
Length = 423
Score = 65.4 bits (158), Expect = 2e-13
Identities = 26/128 (20%), Positives = 56/128 (43%), Gaps = 1/128 (0%)
Query: 12 LLFSRQGKLRLQKWYVAHPDKLKKKITRELITTILARKPKMCSFLEWKDVKIVYKRYASL 71
+ +GK+ + + Y D + + ++ + + L V+ ++ ++ +L
Sbjct: 7 YVLDLKGKVLICRNYRGDVDMSEVEHFMPILME-KEEEGMLSPILAHGGVRFMWIKHNNL 65
Query: 72 YFCCAIEQNDNELLTLEIIHRYVELLDKYFGSVCELDIIFNFEKAYFILDELLLGGEIQE 131
Y ++N L +++ V++ +YF + E I NF Y +LDEL+ G Q
Sbjct: 66 YLVATSKKNACVSLVFSFLYKVVQVFSEYFKELEEESIRDNFVIIYELLDELMDFGYPQT 125
Query: 132 TSKKNVLK 139
T K + +
Sbjct: 126 TDSKILQE 133
>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 = 39.6 bits (92), Expect = 2e-04
Identities = 25/116 (21%), Positives = 43/116 (37%), Gaps = 32/116 (27%)
Query: 55 FLEWKD-VKIVYKR-------------YASLYFCCAIEQNDNEL---LTLEIIHRYVELL 97
+ + V++V+ R S Y AI N + + E + VE +
Sbjct: 1776 VMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAI--NPGRVAASFSQEALQYVVERV 1833
Query: 98 DKYFGSVCELDII-FNFEKA-YFILDELLLGGEIQETSK-KNVLKAIAAQ--DLLQ 148
K G + E I+ +N E Y G+++ NVL I Q D+++
Sbjct: 1834 GKRTGWLVE--IVNYNVENQQYVA------AGDLRALDTVTNVLNFIKLQKIDIIE 1881
>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 = 30.6 bits (68), Expect = 0.20
Identities = 25/142 (17%), Positives = 43/142 (30%), Gaps = 33/142 (23%)
Query: 30 PDKLKKKITRELITTILARKPKMCS--FLEW----KDVKIVY--------KRYASLYFCC 75
D K +++E I I+ K + L W K ++V Y L
Sbjct: 39 QDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPI 98
Query: 76 AIEQNDNELLT------LEIIHRYVELLDKYFGSVCELDIIFNFEKAYFILDE---LLL- 125
EQ ++T + ++ ++ KY V L +A L +L+
Sbjct: 99 KTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYN--VSRLQPYLKLRQALLELRPAKNVLID 156
Query: 126 --GGEIQETSKKNVLKAIAAQD 145
G S K +
Sbjct: 157 GVLG-----SGKTWVALDVCLS 173
Score = 29.1 bits (64), Expect = 0.72
Identities = 12/79 (15%), Positives = 24/79 (30%), Gaps = 10/79 (12%)
Query: 40 ELITTILARKPKMCSFLEWKDVKIVYKRYASLYFCCAIEQNDNELLTLEIIHRYVELLDK 99
++ L + S +E K K S+Y ++ + L I+ Y +
Sbjct: 405 MVVVNKLHKY----SLVE-KQPKESTISIPSIYLELKVKLENEYALHRSIVDHY-NIPKT 458
Query: 100 YFGSVCELDIIFNFEKAYF 118
+ + YF
Sbjct: 459 FDSDDLIPPYLDQ----YF 473
>3h7m_A Sensor protein; histidine kinase sensor domain, kinase,
phosphoprotein, transferase; 2.40A {Geobacter
sulfurreducens}
Length = 234
Score = 28.0 bits (63), Expect = 1.0
Identities = 13/53 (24%), Positives = 23/53 (43%), Gaps = 8/53 (15%)
Query: 59 KDVKIVYKRYASLYFCCAIEQNDNELL-----TLEIIH---RYVELLDKYFGS 103
++ V + A+ + A+ Q D ELL L I+ +Y + K+ G
Sbjct: 179 TNLVPVARSIAAQRYGYAVRQGDAELLARFSEGLAILRKTGQYEAIRAKWLGV 231
>2c1v_A DI-HAEM cytochrome C peroxidase; electron transport, heme,
oxidoreductase, periplasmic; HET: HEC; 1.2A {Paracoccus
pantotrophus} PDB: 2c1u_A*
Length = 338
Score = 25.8 bits (57), Expect = 6.5
Identities = 6/31 (19%), Positives = 9/31 (29%), Gaps = 8/31 (25%)
Query: 113 FEKAYFILDELLLGGEIQETSKKNVLKAIAA 143
F+ A+ E + N AI
Sbjct: 150 FKAAF--------PEEADPVTFDNFAAAIEQ 172
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
0.326 0.141 0.417
Gapped
Lambda K H
0.267 0.0803 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,343,694
Number of extensions: 135407
Number of successful extensions: 424
Number of sequences better than 10.0: 1
Number of HSP's gapped: 417
Number of HSP's successfully gapped: 21
Length of query: 149
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 64
Effective length of database: 4,328,508
Effective search space: 277024512
Effective search space used: 277024512
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (24.1 bits)