RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13184
(285 letters)
>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein,
abnormal nuclear; zinc-finger, beta barrel, VWA domain,
gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP:
a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1
Length = 926
Score = 54.4 bits (130), Expect = 1e-08
Identities = 31/169 (18%), Positives = 39/169 (23%), Gaps = 2/169 (1%)
Query: 119 AQNNTSKQTPAQNNTPKQTPAQNNTPKQT--PGQNNTPKQTPGQNNTPKQKGQNNTPRQT 176
QN T Q PAQ P+ A + Q P Q P Q TP Q+ + Q
Sbjct: 17 GQNATPLQQPAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQFLTPAQEQLHQQIDQA 76
Query: 177 PGQNNTPKQKGQNNTPKQTPAQNNTPKQKGQNNTPKQTPGQNDTPEQKGQNNTPKQTPGQ 236
N Q P Q G +Q P Q P
Sbjct: 77 TTSMNDMHLHNVPLVDPNAYMQPQVPVQMGTPLQQQQQPMAAPAYGQPSAAMGQNMRPMN 136
Query: 237 NKTPKQTPGQNNTPKQKGQNNTPKQTPGQNDTPEQKGQNNTPKQTRTFS 285
P + P P +N +
Sbjct: 137 QLYPIDLLTELPPPITDLTLPPPPLVIPPERMLVPSELSNASPDYIRST 185
Score = 52.1 bits (124), Expect = 1e-07
Identities = 33/151 (21%), Positives = 39/151 (25%), Gaps = 6/151 (3%)
Query: 134 PKQTPAQNNTPKQTPGQNNTPKQTPGQNNTPKQKGQNNTPRQTPGQNNTPKQKGQNNTPK 193
K+ Q GQN TP Q P Q P+ G
Sbjct: 5 KKRVYPQAQLQ---YGQNATPLQQPAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQF 61
Query: 194 QTPAQNNTPKQKGQNNTPKQTPGQNDTPEQKGQNNTPKQTPGQNKTPKQTPGQNNTPKQK 253
TPAQ +Q Q T ++ P Q P Q TP Q Q
Sbjct: 62 LTPAQEQLHQQIDQATTSMNDMHLHNVPLVDPNAYMQPQVPVQMGTPLQQQQQPMAAPAY 121
Query: 254 GQNNTPKQ---TPGQNDTPEQKGQNNTPKQT 281
GQ + P P P T
Sbjct: 122 GQPSAAMGQNMRPMNQLYPIDLLTELPPPIT 152
Score = 51.0 bits (121), Expect = 2e-07
Identities = 34/146 (23%), Positives = 37/146 (25%), Gaps = 4/146 (2%)
Query: 128 PAQNNTPKQTPAQNNTPKQTPGQNNTPKQTPGQNNTPKQKGQNNTPRQTPGQNNTPKQKG 187
QN TP Q PAQ P Q P G TP Q +Q
Sbjct: 16 YGQNATPLQQPAQFMPP-QDPAAAGMSYGQMGMPPQGAVPSMGQQQFLTPAQEQLHQQID 74
Query: 188 QNNTPKQTPAQNNTPKQKGQNNTPKQTPGQNDTPEQKGQNNTPKQTPGQNKTPKQ---TP 244
Q T +N P Q P Q TP Q+ Q GQ P
Sbjct: 75 QATTSMNDMHLHNVPLVDPNAYMQPQVPVQMGTPLQQQQQPMAAPAYGQPSAAMGQNMRP 134
Query: 245 GQNNTPKQKGQNNTPKQTPGQNDTPE 270
P P T P
Sbjct: 135 MNQLYPIDLLTELPPPITDLTLPPPP 160
Score = 48.3 bits (114), Expect = 1e-06
Identities = 26/121 (21%), Positives = 31/121 (25%)
Query: 162 NTPKQKGQNNTPRQTPGQNNTPKQKGQNNTPKQTPAQNNTPKQKGQNNTPKQTPGQNDTP 221
Q GQN TP Q P Q P+ TP Q
Sbjct: 11 QAQLQYGQNATPLQQPAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQFLTPAQEQLH 70
Query: 222 EQKGQNNTPKQTPGQNKTPKQTPGQNNTPKQKGQNNTPKQTPGQNDTPEQKGQNNTPKQT 281
+Q Q T + P P P+ Q TP Q Q GQ +
Sbjct: 71 QQIDQATTSMNDMHLHNVPLVDPNAYMQPQVPVQMGTPLQQQQQPMAAPAYGQPSAAMGQ 130
Query: 282 R 282
Sbjct: 131 N 131
Score = 47.9 bits (113), Expect = 2e-06
Identities = 27/170 (15%), Positives = 39/170 (22%), Gaps = 7/170 (4%)
Query: 98 PAKKSTVNSTATPSQSTSIDSAQNNTSKQTPAQNNTPKQ----TPAQNNTPKQTPGQNNT 153
P + ATP Q + + + + P+ TP Q
Sbjct: 10 PQAQLQYGQNATPLQQPAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQFLTPAQEQL 69
Query: 154 PKQTPGQNNTPKQKGQNNTPRQTPGQNNTPKQKGQNNTPKQTPAQNNTPKQKGQNNTPKQ 213
+Q + +N P P P+ Q TP Q Q GQ +
Sbjct: 70 HQQIDQATTSMNDMHLHNVPLVDPNAYMQPQVPVQMGTPLQQQQQPMAAPAYGQPSAAMG 129
Query: 214 ---TPGQNDTPEQKGQNNTPKQTPGQNKTPKQTPGQNNTPKQKGQNNTPK 260
P P P T P +N
Sbjct: 130 QNMRPMNQLYPIDLLTELPPPITDLTLPPPPLVIPPERMLVPSELSNASP 179
>2z73_A Rhodopsin; visual pigment, GQ-type, G-protein coupled receptor,
chromophore, glycoprotein, lipoprotein, membrane,
palmitate phosphorylation; HET: BOG RET PLM TWT PC1;
2.50A {Todarodes pacificus} PDB: 3aym_A* 3ayn_A* 2ziy_A*
Length = 448
Score = 34.9 bits (80), Expect = 0.023
Identities = 18/101 (17%), Positives = 27/101 (26%), Gaps = 3/101 (2%)
Query: 83 GRRKPKQSISSVTKTPAKKSTVNSTATPSQSTSIDSAQNNTSKQTPAQNNTPKQTPAQNN 142
+ K++ + +S A PS + ++ Q P
Sbjct: 337 CQFDDKETEDDKDAETEIPAGESSDAAPSADAAQMKEMMAMMQKMQQQQ--AAYPPQGYA 394
Query: 143 TPKQTPGQNNTPKQTPGQNNTPKQKGQNNTPRQTPGQNNTP 183
P Q P Q P Q G P+ P Q P
Sbjct: 395 PPPQGYPPQGYPPQGYPPQGYPPQ-GYPPPPQGAPPQGAPP 434
Score = 32.6 bits (74), Expect = 0.13
Identities = 14/94 (14%), Positives = 24/94 (25%), Gaps = 2/94 (2%)
Query: 86 KPKQSISSVTKTPAKKSTVNSTATPSQSTSIDSAQNNTSKQTPAQNNTPKQTPAQNNTPK 145
K ++ ++ + ++ + Q + P P Q P
Sbjct: 348 KDAETEIPAGESSDAAPSADAAQMKEMMAMMQKMQQQQAAYPPQGYAPPPQGYPPQGYPP 407
Query: 146 QTPGQNNTPKQTPGQNNTPKQKGQNNTPRQTPGQ 179
Q P Q G P+ P P Q
Sbjct: 408 QGYPPQGYPPQ--GYPPPPQGAPPQGAPPAAPPQ 439
>1s58_A B19 parvovirus capsid; icosahedral capsid, beta-barrel, icosahedral
virus; 3.50A {Human parvovirus B19} SCOP: b.121.5.2
Length = 554
Score = 32.8 bits (74), Expect = 0.11
Identities = 20/160 (12%), Positives = 38/160 (23%), Gaps = 2/160 (1%)
Query: 124 SKQTPAQNNTPKQTPAQNNTPKQTPGQNNTPKQTPGQNNTPKQKGQNNTPRQTPGQNNTP 183
+ + +Q+ P + PK + + QN P P N+
Sbjct: 241 NLEGCSQHFYEMYNPLYGSRLGVPDTLGGDPKFRSLTHEDHAIQPQNFMP--GPLVNSVS 298
Query: 184 KQKGQNNTPKQTPAQNNTPKQKGQNNTPKQTPGQNDTPEQKGQNNTPKQTPGQNKTPKQT 243
++G ++ A QN PG P + + T
Sbjct: 299 TKEGDSSNTGAGKALTGLSTGTSQNTRISLRPGPVSQPYHHWDTDKYVTGINAISHGQTT 358
Query: 244 PGQNNTPKQKGQNNTPKQTPGQNDTPEQKGQNNTPKQTRT 283
G + + Q + + T
Sbjct: 359 YGNAEDKEYQQGVGRFPNEKEQLKQLQGLNMHTYFPNKGT 398
>1jk0_A RNR Y2, ribonucleoside-diphosphate reductase small chain 1;
ribonucleotide reductase, oxidoreductase; 2.80A
{Saccharomyces cerevisiae} SCOP: a.25.1.2 PDB: 1smq_A
Length = 419
Score = 31.5 bits (71), Expect = 0.31
Identities = 12/102 (11%), Positives = 31/102 (30%), Gaps = 12/102 (11%)
Query: 120 QNNTSKQTPAQNNTPKQTPAQNNTPKQTPGQNNTPKQTPGQNNTPKQKGQNNTPRQTPGQ 179
+++S P ++ PK+TP + ++ + N + + +
Sbjct: 8 HHHSSGLVPRGSHMPKETP----SKAAADALSDLEIKDSKSNLNKELETLR--------E 55
Query: 180 NNTPKQKGQNNTPKQTPAQNNTPKQKGQNNTPKQTPGQNDTP 221
N K + + + Q + K + + P
Sbjct: 56 ENRVKSDMLKEKLSKDAENHKAYLKSHQVHRHKLKEMEKEEP 97
>3ecq_A Protein SPR0328, endo-alpha-N-acetylgalactosaminidase; distorted
(beta/alpha)8 (TIM) barrel glycoside hydrolase DOM WALL;
2.90A {Streptococcus pneumoniae}
Length = 1531
Score = 29.9 bits (66), Expect = 1.2
Identities = 13/79 (16%), Positives = 25/79 (31%)
Query: 93 SVTKTPAKKSTVNSTATPSQSTSIDSAQNNTSKQTPAQNNTPKQTPAQNNTPKQTPGQNN 152
S PA +T +TA + ++ + + +P + PK K+ P +
Sbjct: 9 STANLPADLATALATAKENDGHDFEAPKVGEDQGSPEVTDGPKTEEELLALEKEKPAEEK 68
Query: 153 TPKQTPGQNNTPKQKGQNN 171
+ P K
Sbjct: 69 PKEDKPAAAKPETPKTVTP 87
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
0.296 0.114 0.312
Gapped
Lambda K H
0.267 0.0444 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,258,056
Number of extensions: 158858
Number of successful extensions: 210
Number of sequences better than 10.0: 1
Number of HSP's gapped: 177
Number of HSP's successfully gapped: 46
Length of query: 285
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 192
Effective length of database: 4,105,140
Effective search space: 788186880
Effective search space used: 788186880
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 17 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 44 (21.9 bits)
S2: 57 (26.5 bits)